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small RNAseq output format definition #10

Open lpantano opened 7 years ago

lpantano commented 7 years ago

Hi all again,

cc: @ThomasDesvignes @mhalushka @mlhack @keilbeck @BastianFromm @ivlachos @TJU-CMC

After giving some time to think, I realized we could ask slightly different for a solution the naming problem. I will do a separate issue (tomorrow) for miRNA+isomiR naming since we all agree are super related and we can discuss there. Meanwhile, I think we can give a thought on:

Do we need a standard output for small RNAseq data? if yes, which?

Advantages:

All that is true if we set a minimum mandatory information that should be in the file format.

Information that should be included:

(Please add other information the format should have if you agree on this)

I will develop more as a comment in the issue, my first idea was a version of VCF files. They are focused on variation, and can be adapted to small RNA variation using the different fields. Beside the INFO column allow us to create any specific field needed. And there are already many tools supporting this file format that can encourage to get people using it.

Please, add any of your ideas and remember you can use the vote system on the issue page to give support, or, just reply. Feel free to modify this issue to add more information.

Deadline: May21

lpantano commented 7 years ago

I will give a first shot. This may be related to the other issue about isomiR naming, but I realized that it was more related to a format definition for small RNA data. I will focus on miRNA, to start with something that I can go deeply, but can be applied to tRNA fragments.

I propose VCF format as output of miRNA/isomiR annotation for small RNAseq data:

I won't go into all possibilities inside column 7 and 9, If people like the idea we can define the mandatory fields that should be there that would help quality here. As well, tools can be developed to map genomic to miRNA coordinates or otherwise around, and from difference databases.

The idea is that all the information is always here, and different methods can be used to PASS or REJECT sequences considered as possible true isomiRs, or relevant, or filter or any manipulation you can think of.

Tools already ready to manipulate VCF:

Please, comment about the idea, or possible improvements or alternatives or just vote :)

gurgese commented 7 years ago

Hi @lpantano @BastianFromm and all the other,

In my opinion the tabular format is a good choice for reports the miRNA/isomiR annotation and for this a customized VCF format can be a viable solution.

To this end, I can share with you my personal experience with this kind of problem and what I developed as a solution.

I developed, during my PhD, a tool called isomiR-SEA capable to maps the input tags on miRNAs reported inmiRBase. This process is executed using a custom alignment algorithm that classify the tags as exact miRNAs or isoforms at run-time during the alignment procedure. To make short the story, at the end of the analysis isomiR-SEA provide 2 main output files: 1) file stores all tags mapped on a single miRNA sequence. 2) collects multimapped tags selected through the analysis of the mapping score.

Both are structurated as tabular where all the information for post-analysis filtering and classification are stored.

In the following I will list the meaning of the principal columns: • tag_sequence - The original tag sequence; • tag_quality - Average tag quality computed for each nucleotide of the tag sequence; • #count_tags - Number of identical reads supporting the tag sequence; • mirna_name - Info relative to the miRNA that associated to the tag (data from miRNA database); • mirna_seq - The miRNA sequence; • begin_ungapped_mirna - The miRNA nt position where the miRNA-tag alignment begin; • begin_ungapped_tag - The tag nt position where the miRNA-tag alignment begin; • align_score - The alignment score computed with isomiR-SEA; • mir_tag_size_diff - difference in size between miRNA seq and tag seq; • All the other fields are flags (saved during the alignment phase) that provide informations about the isoforms identified and the interaction sites conserved. Here the list of these flags -> mirna_exact, iso_5p, iso_snp, iso_multi_snp, iso_3p, offset_site, suppl_compens_site, cen- tral_site

The file collecting tags selected from the multi-mapped have three more fields: a) mir2-mir1_align_score - This value is the score difference between the miR-tag aliggned with the second higher score and the score of the best aligned miR-tag; b) num_mir_family - It represents the number of different miRNAs families, on which the tag has been mapped; c) num_of_mapped_miRNAs - It is the number of miRNAs attributed to the same tag.

Using these info it is possible to discriminate between 17 isomiR types ( http://media.springernature.com/full/springer-static/image/art%3A10.1186%2Fs12859-016-0958-0/MediaObjects/12859_2016_958_Fig2_HTML.gif ). Moreover, it is possible to check if the aligned tags conserve the miRNA-mRNA interaction sites considered as important (seed, offset, supplementary and central).

Here you can find more dettails about the isomiR classification and some pictures that support what I wrote in this post -> https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-016-0958-0

BastianFromm commented 7 years ago

works for me!

[image: Inline image 1]

Dr. Bastian Fromm (PhD)

PostDoc Department of Tumor Biology Institute for Cancer Research Norwegian Radium Hospital Oslo University Hospital PO Box 4950 Nydalen 0424 Oslo Norway

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On Tue, May 23, 2017 at 3:14 PM, mhalushka notifications@github.com wrote:

This link is dead (at least for me): https://bmcbioinformatics. biomedcentral.com/articles/10.1186/s12859-016-0958-0. Can you check that and see if there's a better URL?

— You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub https://github.com/miRTop/incubator/issues/10#issuecomment-303393542, or mute the thread https://github.com/notifications/unsubscribe-auth/AaAi32LcQVkpqYLh1hgRimk3DXiBEmfYks5r8tubgaJpZM4NP7RD .

ThomasDesvignes commented 7 years ago

Hi Gianvito, isomiR-SEA looks like a great tool! And your classification of isomiR variations is a very interesting way to sort them up. I'll have to try it! Concerning the format of output, I'm definitively not an expert and can't really provide insights on which format is best but people I work with (@peterbatzel and @jasonsydes) suggested to me that "a GFF3 format would likely be a better fit than VCF format. GFF3 apparently allows any type of custom 'tag' to be added, making it ideal for obscure or very specific problems (maybe including counts, normalized counts, tissues, putative secondary structure when relevant, etc). VCF is somewhat similar to that, allowing custom entries in the INFO and SAMPLE fields. One major drawback of VCF is that it is specifically designed for single genomic positions (one position per line). On the other hand, GFF3 entries (lines) specify start and stop position, allowing any length feature to be described. GFF3 also already has built into it the notion of parenthood, thinking of annotating primary, precursor, and isomiRs all in the same file with relationship explicitly pronounced. In addition Lorena's suggestion of a CIGAR like tag for isomiRs would still work in GFF3 format and we believe is a great idea." That's all I can provide on this end... I'll direct the discussion to my colleagues if they want to chime in.

keilbeck commented 7 years ago

We maintain the GFF3 spec thru the sequence ontology and would be happy to work with this group to accommodate your needs.

lpantano commented 7 years ago

Hi,

I see the point of GFF3. I thought about GFF3 as a format for data that was more curated, but I am up to try it, for sure.

I know the main problem of VCF is that is designed for SNPs, but actually they are using it even for translocation that are in different chroms. You just adapt the position to be something else, not just a single position.

Has somebody used GFF3 to add information by sample? Because I think it would be usable to have that, like VCF have the SAMPLES columns, where you can put count data, or anything related to each sample to that feature.

Or can we add 1 column at the end of the GFF for each sample and called the format differently if this is incompatible with GFF?

Thanks for all the feedback.

keilbeck commented 7 years ago

Column 9 of Gff3 is where you can add your own annotation. You would not need to add an extra column I don't think. Parsers generally expect 9 cols and there is some flexibility to the last one. If this is spec'd out well, we can add it to the documentation

BastianFromm commented 7 years ago

Hi all. Gff3 is a good format and Mirgenedb2.0 will have downloadable gff3 and bed. (beta gff3 attached)

On May 26, 2017 21:16, "Karen EIlbeck" notifications@github.com wrote:

Column 9 of Gff3 is where you can add your own annotation. You would not need to add an extra column I don't think. Parsers generally expect 9 cols and there is some flexibility to the last one. If this is spec'd out well, we can add it to the documentation

— You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub https://github.com/miRTop/incubator/issues/10#issuecomment-304366346, or mute the thread https://github.com/notifications/unsubscribe-auth/AaAi33J_y2Tx6lNQGSSq6Lz0oQ8vo7Pcks5r9yUZgaJpZM4NP7RD .

gff-version 3

microRNAs: MirGeneDB v1.1

genome-build-id: hg38

chr1 . pre_miRNA 1167124 1167182 . + . ID=Hsa-Mir-8-P2a_pre;Alias=MI0000342 chr1 . miRNA 1167124 1167146 . + . ID=Hsa-Mir-8-P2a_5p;Alias=MIMAT0004571 chr1 . miRNA 1167160 1167183 . + . ID=Hsa-Mir-8-P2a_3p;Alias=MIMAT0000318 chr1 . pre_miRNA 1167878 1167938 . + . ID=Hsa-Mir-8-P1a_pre;Alias=MI0000737 chr1 . miRNA 1167878 1167900 . + . ID=Hsa-Mir-8-P1a_5p;Alias=MIMAT0001620 chr1 . miRNA 1167916 1167939 . + . ID=Hsa-Mir-8-P1a_3p;Alias=MIMAT0000682 chr1 . pre_miRNA 1169020 1169076 . + . ID=Hsa-Mir-8-P3a_pre;Alias=MI0001641 chr1 . miRNA 1169020 1169041 . + . ID=Hsa-Mir-8-P3a_5p chr1 . miRNA 1169055 1169077 . + . ID=Hsa-Mir-8-P3a_3p;Alias=MIMAT0001536 chr1 . pre_miRNA 3560710 3560769 . - . ID=Hsa-Mir-551-P1_pre;Alias=MI0003556 chr1 . miRNA 3560710 3560733 . - . ID=Hsa-Mir-551-P1_5p chr1 . miRNA 3560749 3560770 . - . ID=Hsa-Mir-551-P1_3p;Alias=MIMAT0003214 chr1 . pre_miRNA 9151692 9151756 . - . ID=Hsa-Mir-34-P1_pre;Alias=MI0000268 chr1 . miRNA 9151692 9151714 . - . ID=Hsa-Mir-34-P1_5p;Alias=MIMAT0000255 chr1 . miRNA 9151735 9151757 . - . ID=Hsa-Mir-34-P1_3p;Alias=MIMAT0004557 chr1 . pre_miRNA 20988342 20988398 . - . ID=Hsa-Mir-1256_pre;Alias=MI0006390 chr1 . miRNA 20988342 20988364 . - . ID=Hsa-Mir-1256_5p;Alias=MIMAT0005907 chr1 . miRNA 20988377 20988399 . - . ID=Hsa-Mir-1256_3p chr1 . pre_miRNA 33332405 33332471 . - . ID=Hsa-Mir-3605_pre;Alias=MI0015995 chr1 . miRNA 33332405 33332428 . - . ID=Hsa-Mir-3605_5p;Alias=MIMAT0017981 chr1 . miRNA 33332449 33332472 . - . ID=Hsa-Mir-3605_3p;Alias=MIMAT0017982 chr1 . pre_miRNA 34669613 34669671 . - . ID=Hsa-Mir-552_pre;Alias=MI0003557 chr1 . miRNA 34669613 34669635 . - . ID=Hsa-Mir-552_5p;Alias=MIMAT0026615 chr1 . miRNA 34669650 34669672 . - . ID=Hsa-Mir-552_3p;Alias=MIMAT0003215 chr1 . pre_miRNA 37500935 37500993 . - . ID=Hsa-Mir-5581_pre;Alias=MI0019136 chr1 . miRNA 37500935 37500957 . - . ID=Hsa-Mir-5581_5p;Alias=MIMAT0022275 chr1 . miRNA 37500972 37500994 . - . ID=Hsa-Mir-5581_3p;Alias=MIMAT0022276 chr1 . pre_miRNA 40754371 40754434 . + . ID=Hsa-Mir-30-P1b_pre;Alias=MI0000749 chr1 . miRNA 40754371 40754395 . + . ID=Hsa-Mir-30-P1b_5p;Alias=MIMAT0000692 chr1 . miRNA 40754413 40754435 . + . ID=Hsa-Mir-30-P1b_3p;Alias=MIMAT0000693 chr1 . pre_miRNA 40757300 40757360 . + . ID=Hsa-Mir-30-P2b_pre;Alias=MI0000736 chr1 . miRNA 40757300 40757324 . + . ID=Hsa-Mir-30-P2b_5p;Alias=MIMAT0000244 chr1 . miRNA 40757339 40757361 . + . ID=Hsa-Mir-30-P2b_3p;Alias=MIMAT0004674 chr1 . pre_miRNA 65058441 65058499 . - . ID=Hsa-Mir-101-P1_pre;Alias=MI0000103 chr1 . miRNA 65058441 65058464 . - . ID=Hsa-Mir-101-P1_5p;Alias=MIMAT0004513 chr1 . miRNA 65058478 65058500 . - . ID=Hsa-Mir-101-P1_3p;Alias=MIMAT0000099 chr1 . pre_miRNA 71067642 71067702 . - . ID=Hsa-Mir-186_pre;Alias=MI0000483 chr1 . miRNA 71067642 71067665 . - . ID=Hsa-Mir-186_5p;Alias=MIMAT0000456 chr1 . miRNA 71067681 71067703 . - . ID=Hsa-Mir-186_3p;Alias=MIMAT0004612 chr1 . pre_miRNA 93846843 93846900 . + . ID=Hsa-Mir-760_pre;Alias=MI0005567 chr1 . miRNA 93846843 93846867 . + . ID=Hsa-Mir-760_5p chr1 . miRNA 93846880 93846901 . + . ID=Hsa-Mir-760_3p;Alias=MIMAT0004957 chr1 . pre_miRNA 98046091 98046149 . - . ID=Hsa-Mir-137-P1_pre;Alias=MI0000454 chr1 . miRNA 98046091 98046115 . - . ID=Hsa-Mir-137-P1_5p chr1 . miRNA 98046127 98046150 . - . ID=Hsa-Mir-137-P1_3p;Alias=MIMAT0000429 chr1 . pre_miRNA 109598901 109598961 . + . ID=Hsa-Mir-197_pre;Alias=MI0000239 chr1 . miRNA 109598901 109598924 . + . ID=Hsa-Mir-197_5p;Alias=MIMAT0022691 chr1 . miRNA 109598940 109598962 . + . ID=Hsa-Mir-197_3p;Alias=MIMAT0000227 chr1 . pre_miRNA 117094655 117094718 . + . ID=Hsa-Mir-942_pre;Alias=MI0005767 chr1 . miRNA 117094655 117094677 . + . ID=Hsa-Mir-942_5p;Alias=MIMAT0004985 chr1 . miRNA 117094697 117094719 . + . ID=Hsa-Mir-942_3p;Alias=MIMAT0026734 chr1 . pre_miRNA 154193675 154193733 . - . ID=Hsa-Mir-190-P2_pre;Alias=MI0005545 chr1 . miRNA 154193675 154193697 . - . ID=Hsa-Mir-190-P2_5p;Alias=MIMAT0004929 chr1 . miRNA 154193712 154193734 . - . ID=Hsa-Mir-190-P2_3p chr1 . pre_miRNA 155195196 155195258 . + . ID=Hsa-Mir-92-P3_pre;Alias=MI0003560 chr1 . miRNA 155195196 155195220 . + . ID=Hsa-Mir-92-P3_5p;Alias=MIMAT0004792 chr1 . miRNA 155195237 155195259 . + . ID=Hsa-Mir-92-P3_3p;Alias=MIMAT0003218 chr1 . pre_miRNA 156420353 156420414 . - . ID=Hsa-Mir-9-P1_pre;Alias=MI0000466 chr1 . miRNA 156420353 156420376 . - . ID=Hsa-Mir-9-P1_5p;Alias=MIMAT0000441 chr1 . miRNA 156420392 156420415 . - . ID=Hsa-Mir-9-P1_3p;Alias=MIMAT0000442 chr1 . pre_miRNA 162342561 162342620 . + . ID=Hsa-Mir-556_pre;Alias=MI0003562 chr1 . miRNA 162342561 162342582 . + . ID=Hsa-Mir-556_5p;Alias=MIMAT0003220 chr1 . miRNA 162342600 162342621 . + . ID=Hsa-Mir-556_3p;Alias=MIMAT0004793 chr1 . pre_miRNA 171101737 171101797 . - . ID=Hsa-Mir-1295_pre;Alias=MI0006357 chr1 . miRNA 171101737 171101759 . - . ID=Hsa-Mir-1295_5p chr1 . miRNA 171101776 171101798 . - . ID=Hsa-Mir-1295_3p;Alias=MIMAT0005885 chr1 . pre_miRNA 172138816 172138878 . - . ID=Hsa-Mir-214_pre;Alias=MI0000290 chr1 . miRNA 172138816 172138838 . - . ID=Hsa-Mir-214_5p;Alias=MIMAT0004564 chr1 . miRNA 172138857 172138879 . - . ID=Hsa-Mir-214_3p;Alias=MIMAT0000271 chr1 . pre_miRNA 172144554 172144614 . - . ID=Hsa-Mir-199-P2_pre;Alias=MI0000281 chr1 . miRNA 172144554 172144577 . - . ID=Hsa-Mir-199-P2_5p;Alias=MIMAT0000231 chr1 . miRNA 172144593 172144615 . - . ID=Hsa-Mir-199-P2_3p;Alias=MIMAT0000232 chr1 . pre_miRNA 177029374 177029432 . - . ID=Hsa-Mir-488_pre;Alias=MI0003123 chr1 . miRNA 177029374 177029397 . - . ID=Hsa-Mir-488_5p;Alias=MIMAT0002804 chr1 . miRNA 177029412 177029433 . - . ID=Hsa-Mir-488_3p;Alias=MIMAT0004763 chr1 . pre_miRNA 178677763 178677822 . + . ID=Hsa-Mir-4424_pre;Alias=MI0016763 chr1 . miRNA 178677763 178677785 . + . ID=Hsa-Mir-4424_5p;Alias=MIMAT0018939 chr1 . miRNA 178677801 178677823 . + . ID=Hsa-Mir-4424_3p chr1 . pre_miRNA 180438323 180438379 . - . ID=Hsa-Mir-3121_pre;Alias=MI0014137 chr1 . miRNA 180438323 180438345 . - . ID=Hsa-Mir-3121_5p;Alias=MIMAT0019199 chr1 . miRNA 180438358 180438380 . - . ID=Hsa-Mir-3121_3p;Alias=MIMAT0014983 chr1 . pre_miRNA 193136513 193136573 . + . ID=Hsa-Mir-1278_pre;Alias=MI0006425 chr1 . miRNA 193136513 193136535 . + . ID=Hsa-Mir-1278_5p chr1 . miRNA 193136552 193136574 . + . ID=Hsa-Mir-1278_3p;Alias=MIMAT0005936 chr1 . pre_miRNA 198858887 198858947 . - . ID=Hsa-Mir-181-P2a_pre;Alias=MI0000270 chr1 . miRNA 198858887 198858911 . - . ID=Hsa-Mir-181-P2a_5p;Alias=MIMAT0000257 chr1 . miRNA 198858927 198858948 . - . ID=Hsa-Mir-181-P2a_3p;Alias=MIMAT0022692 chr1 . pre_miRNA 198859069 198859130 . - . ID=Hsa-Mir-181-P1a_pre;Alias=MI0000289 chr1 . miRNA 198859069 198859094 . - . ID=Hsa-Mir-181-P1a_5p;Alias=MIMAT0000256 chr1 . miRNA 198859109 198859131 . - . ID=Hsa-Mir-181-P1a_3p;Alias=MIMAT0000270 chr1 . pre_miRNA 205448323 205448383 . - . ID=Hsa-Mir-135-P3_pre;Alias=MI0000810 chr1 . miRNA 205448323 205448346 . - . ID=Hsa-Mir-135-P3_5p;Alias=MIMAT0000758 chr1 . miRNA 205448362 205448384 . - . ID=Hsa-Mir-135-P3_3p;Alias=MIMAT0004698 chr1 . pre_miRNA 207801865 207801922 . - . ID=Hsa-Mir-29-P1b_pre;Alias=MI0000735 chr1 . miRNA 207801865 207801888 . - . ID=Hsa-Mir-29-P1b_5p;Alias=MIMAT0004673 chr1 . miRNA 207801901 207801923 . - . ID=Hsa-Mir-29-P1b_3p;Alias=MIMAT0000681 chr1 . pre_miRNA 207802450 207802513 . - . ID=Hsa-Mir-29-P2b_pre;Alias=MI0000107 chr1 . miRNA 207802450 207802473 . - . ID=Hsa-Mir-29-P2b_5p;Alias=MIMAT0004515 chr1 . miRNA 207802491 207802514 . - . ID=Hsa-Mir-29-P2b_3p;Alias=MIMAT0000100 chr1 . pre_miRNA 209432166 209432224 . + . ID=Hsa-Mir-205-P1_pre;Alias=MI0000285 chr1 . miRNA 209432166 209432188 . + . ID=Hsa-Mir-205-P1_5p;Alias=MIMAT0000266 chr1 . miRNA 209432203 209432225 . + . ID=Hsa-Mir-205-P1_3p;Alias=MIMAT0009197 chr1 . pre_miRNA 220117877 220117936 . - . ID=Hsa-Mir-192-P2_pre;Alias=MI0000291 chr1 . miRNA 220117877 220117899 . - . ID=Hsa-Mir-192-P2_5p;Alias=MIMAT0000272 chr1 . miRNA 220117914 220117937 . - . ID=Hsa-Mir-192-P2_3p;Alias=MIMAT0026476 chr1 . pre_miRNA 220118170 220118227 . - . ID=Hsa-Mir-194-P2_pre;Alias=MI0000488 chr1 . miRNA 220118170 220118192 . - . ID=Hsa-Mir-194-P2_5p;Alias=MIMAT0000460 chr1 . miRNA 220118206 220118228 . - . ID=Hsa-Mir-194-P2_3p chr1 . pre_miRNA 237471127 237471186 . + . ID=Hsa-Mir-4428_pre;Alias=MI0016767 chr1 . miRNA 237471127 237471150 . + . ID=Hsa-Mir-4428_5p chr1 . miRNA 237471164 237471187 . + . ID=Hsa-Mir-4428_3p;Alias=MIMAT0018943 chr1 . pre_miRNA 243346188 243346246 . + . ID=Hsa-Mir-4677_pre;Alias=MI0017308 chr1 . miRNA 243346188 243346210 . + . ID=Hsa-Mir-4677_5p;Alias=MIMAT0019760 chr1 . miRNA 243346225 243346247 . + . ID=Hsa-Mir-4677_3p;Alias=MIMAT0019761 chr10 . pre_miRNA 17845121 17845181 . + . ID=Hsa-Mir-511_pre;Alias=MI0003127 chr10 . miRNA 17845121 17845143 . + . ID=Hsa-Mir-511_5p;Alias=MIMAT0002808 chr10 . miRNA 17845160 17845182 . + . ID=Hsa-Mir-511_3p;Alias=MIMAT0026606 chr10 . pre_miRNA 35079608 35079668 . - . ID=Hsa-Mir-3611_pre;Alias=MI0016001 chr10 . miRNA 35079608 35079632 . - . ID=Hsa-Mir-3611_5p chr10 . miRNA 35079647 35079669 . - . ID=Hsa-Mir-3611_3p;Alias=MIMAT0017988 chr10 . pre_miRNA 51299588 51299644 . + . ID=Hsa-Mir-605_pre;Alias=MI0003618 chr10 . miRNA 51299588 51299610 . + . ID=Hsa-Mir-605_5p;Alias=MIMAT0003273 chr10 . miRNA 51299623 51299645 . + . ID=Hsa-Mir-605_3p;Alias=MIMAT0026621 chr10 . pre_miRNA 57304489 57304547 . - . ID=Hsa-Mir-3924_pre;Alias=MI0016432 chr10 . miRNA 57304489 57304511 . - . ID=Hsa-Mir-3924_5p chr10 . miRNA 57304526 57304548 . - . ID=Hsa-Mir-3924_3p;Alias=MIMAT0018199 chr10 . pre_miRNA 63372969 63373033 . - . ID=Hsa-Mir-1296_pre;Alias=MI0003780 chr10 . miRNA 63372969 63372991 . - . ID=Hsa-Mir-1296_5p;Alias=MIMAT0005794 chr10 . miRNA 63373013 63373034 . - . ID=Hsa-Mir-1296_3p;Alias=MIMAT0026637 chr10 . pre_miRNA 67403351 67403410 . - . ID=Hsa-Mir-7151_pre;Alias=MI0023611 chr10 . miRNA 67403351 67403375 . - . ID=Hsa-Mir-7151_5p;Alias=MIMAT0028212 chr10 . miRNA 67403389 67403411 . - . ID=Hsa-Mir-7151_3p;Alias=MIMAT0028213 chr10 . pre_miRNA 86264710 86264769 . - . ID=Hsa-Mir-346_pre;Alias=MI0000826 chr10 . miRNA 86264710 86264733 . - . ID=Hsa-Mir-346_5p;Alias=MIMAT0000773 chr10 . miRNA 86264748 86264770 . - . ID=Hsa-Mir-346_3p chr10 . pre_miRNA 89592756 89592815 . - . ID=Hsa-Mir-103-P3_pre;Alias=MI0000114 chr10 . miRNA 89592756 89592779 . - . ID=Hsa-Mir-103-P3_5p chr10 . miRNA 89592793 89592816 . - . ID=Hsa-Mir-103-P3_3p;Alias=MIMAT0000104 chr10 . pre_miRNA 97875824 97875884 . - . ID=Hsa-Mir-3085_pre chr10 . miRNA 97875824 97875849 . - . ID=Hsa-Mir-3085_5p chr10 . miRNA 97875864 97875885 . - . ID=Hsa-Mir-3085_3p chr10 . pre_miRNA 98395232 98395292 . - . ID=Hsa-Mir-1287_pre;Alias=MI0006349 chr10 . miRNA 98395232 98395254 . - . ID=Hsa-Mir-1287_5p;Alias=MIMAT0005878 chr10 . miRNA 98395271 98395293 . - . ID=Hsa-Mir-1287_3p;Alias=MIMAT0026738 chr10 . pre_miRNA 102436520 102436578 . + . ID=Hsa-Mir-146-P2_pre;Alias=MI0003129 chr10 . miRNA 102436520 102436544 . + . ID=Hsa-Mir-146-P2_5p;Alias=MIMAT0002809 chr10 . miRNA 102436557 102436579 . + . ID=Hsa-Mir-146-P2_3p;Alias=MIMAT0004766 chr10 . pre_miRNA 103394300 103394361 . - . ID=Hsa-Mir-1307_pre;Alias=MI0006444 chr10 . miRNA 103394300 103394323 . - . ID=Hsa-Mir-1307_5p;Alias=MIMAT0022727 chr10 . miRNA 103394339 103394362 . - . ID=Hsa-Mir-1307_3p;Alias=MIMAT0005951 chr10 . pre_miRNA 116827499 116827555 . - . ID=Hsa-Mir-9851_pre chr10 . miRNA 116827499 116827521 . - . ID=Hsa-Mir-9851_5p chr10 . miRNA 116827534 116827556 . - . ID=Hsa-Mir-9851_3p chr10 . pre_miRNA 133247536 133247593 . - . ID=Hsa-Mir-202_pre;Alias=MI0003130 chr10 . miRNA 133247536 133247557 . - . ID=Hsa-Mir-202_5p;Alias=MIMAT0002810 chr10 . miRNA 133247572 133247594 . - . ID=Hsa-Mir-202_3p;Alias=MIMAT0002811 chr10 . pre_miRNA 133371579 133371641 . - . ID=Hsa-Mir-3944_pre;Alias=MI0016601 chr10 . miRNA 133371579 133371601 . - . ID=Hsa-Mir-3944_5p;Alias=MIMAT0019231 chr10 . miRNA 133371619 133371642 . - . ID=Hsa-Mir-3944_3p;Alias=MIMAT0018360 chr11 . pre_miRNA 568112 568171 . - . ID=Hsa-Mir-210_pre;Alias=MI0000286 chr11 . miRNA 568112 568134 . - . ID=Hsa-Mir-210_5p;Alias=MIMAT0026475 chr11 . miRNA 568150 568172 . - . ID=Hsa-Mir-210_3p;Alias=MIMAT0000267 chr11 . pre_miRNA 1996766 1996822 . - . ID=Hsa-Mir-675_pre;Alias=MI0005416 chr11 . miRNA 1996766 1996789 . - . ID=Hsa-Mir-675_5p;Alias=MIMAT0004284 chr11 . miRNA 1996801 1996823 . - . ID=Hsa-Mir-675_3p;Alias=MIMAT0006790 chr11 . pre_miRNA 2134140 2134202 . - . ID=Hsa-Mir-483_pre;Alias=MI0002467 chr11 . miRNA 2134140 2134162 . - . ID=Hsa-Mir-483_5p;Alias=MIMAT0004761 chr11 . miRNA 2134181 2134203 . - . ID=Hsa-Mir-483_3p;Alias=MIMAT0002173 chr11 . pre_miRNA 9090318 9090371 . - . ID=Hsa-Mir-5691_pre;Alias=MI0019296 chr11 . miRNA 9090318 9090341 . - . ID=Hsa-Mir-5691_5p;Alias=MIMAT0022483 chr11 . miRNA 9090350 9090372 . - . ID=Hsa-Mir-5691_3p chr11 . pre_miRNA 34941851 34941909 . + . ID=Hsa-Mir-1343_pre;Alias=MI0017320 chr11 . miRNA 34941851 34941873 . + . ID=Hsa-Mir-1343_5p;Alias=MIMAT0027038 chr11 . miRNA 34941888 34941910 . + . ID=Hsa-Mir-1343_3p;Alias=MIMAT0019776 chr11 . pre_miRNA 43559675 43559738 . + . ID=Hsa-Mir-670_pre;Alias=MI0003933 chr11 . miRNA 43559675 43559699 . + . ID=Hsa-Mir-670_5p;Alias=MIMAT0010357 chr11 . miRNA 43559714 43559739 . + . ID=Hsa-Mir-670_3p;Alias=MIMAT0026640 chr11 . pre_miRNA 43581408 43581471 . + . ID=Hsa-Mir-129-P2_pre;Alias=MI0000473 chr11 . miRNA 43581408 43581429 . + . ID=Hsa-Mir-129-P2_5p;Alias=MIMAT0000242 chr11 . miRNA 43581450 43581472 . + . ID=Hsa-Mir-129-P2_3p;Alias=MIMAT0004605 chr11 . pre_miRNA 57641212 57641274 . + . ID=Hsa-Mir-130-P1a_pre;Alias=MI0000448 chr11 . miRNA 57641212 57641234 . + . ID=Hsa-Mir-130-P1a_5p;Alias=MIMAT0004593 chr11 . miRNA 57641252 57641275 . + . ID=Hsa-Mir-130-P1a_3p;Alias=MIMAT0000425 chr11 . pre_miRNA 61815172 61815229 . - . ID=Hsa-Mir-1908_pre;Alias=MI0008329 chr11 . miRNA 61815172 61815193 . - . ID=Hsa-Mir-1908_5p;Alias=MIMAT0007881 chr11 . miRNA 61815209 61815230 . - . ID=Hsa-Mir-1908_3p;Alias=MIMAT0026916 chr11 . pre_miRNA 61878215 61878273 . - . ID=Hsa-Mir-6746_pre;Alias=MI0022591 chr11 . miRNA 61878215 61878238 . - . ID=Hsa-Mir-6746_5p;Alias=MIMAT0027392 chr11 . miRNA 61878251 61878274 . - . ID=Hsa-Mir-6746_3p;Alias=MIMAT0027393 chr11 . pre_miRNA 64891159 64891223 . - . ID=Hsa-Mir-192-P1_pre;Alias=MI0000234 chr11 . miRNA 64891159 64891180 . - . ID=Hsa-Mir-192-P1_5p;Alias=MIMAT0000222 chr11 . miRNA 64891202 64891224 . - . ID=Hsa-Mir-192-P1_3p;Alias=MIMAT0004543 chr11 . pre_miRNA 64891368 64891425 . - . ID=Hsa-Mir-194-P1_pre;Alias=MI0000732 chr11 . miRNA 64891368 64891391 . - . ID=Hsa-Mir-194-P1_5p;Alias=MIMAT0000460 chr11 . miRNA 64891404 64891426 . - . ID=Hsa-Mir-194-P1_3p;Alias=MIMAT0004671 chr11 . pre_miRNA 66934441 66934497 . - . ID=Hsa-Mir-3163_pre;Alias=MI0014193 chr11 . miRNA 66934441 66934463 . - . ID=Hsa-Mir-3163_5p;Alias=MIMAT0015037 chr11 . miRNA 66934476 66934498 . - . ID=Hsa-Mir-3163_3p chr11 . pre_miRNA 69083185 69083250 . + . ID=Hsa-Mir-3164_pre;Alias=MI0014194 chr11 . miRNA 69083185 69083207 . + . ID=Hsa-Mir-3164_5p;Alias=MIMAT0015038 chr11 . miRNA 69083229 69083251 . + . ID=Hsa-Mir-3164_3p chr11 . pre_miRNA 72615066 72615124 . - . ID=Hsa-Mir-139_pre;Alias=MI0000261 chr11 . miRNA 72615066 72615089 . - . ID=Hsa-Mir-139_5p;Alias=MIMAT0000250 chr11 . miRNA 72615102 72615125 . - . ID=Hsa-Mir-139_3p;Alias=MIMAT0004552 chr11 . pre_miRNA 75335108 75335167 . - . ID=Hsa-Mir-326_pre;Alias=MI0000808 chr11 . miRNA 75335108 75335132 . - . ID=Hsa-Mir-326_5p chr11 . miRNA 75335148 75335168 . - . ID=Hsa-Mir-326_3p;Alias=MIMAT0000756 chr11 . pre_miRNA 79402031 79402099 . - . ID=Hsa-Mir-28-P3_pre;Alias=MI0005543 chr11 . miRNA 79402031 79402054 . - . ID=Hsa-Mir-28-P3_5p;Alias=MIMAT0004926 chr11 . miRNA 79402077 79402100 . - . ID=Hsa-Mir-28-P3_3p;Alias=MIMAT0004927 chr11 . pre_miRNA 79422169 79422226 . - . ID=Hsa-Mir-5579_pre;Alias=MI0019133 chr11 . miRNA 79422169 79422191 . - . ID=Hsa-Mir-5579_5p;Alias=MIMAT0022269 chr11 . miRNA 79422205 79422227 . - . ID=Hsa-Mir-5579_3p;Alias=MIMAT0022270 chr11 . pre_miRNA 111512951 111513009 . + . ID=Hsa-Mir-34-P2a_pre;Alias=MI0000742 chr11 . miRNA 111512951 111512974 . + . ID=Hsa-Mir-34-P2a_5p;Alias=MIMAT0000685 chr11 . miRNA 111512988 111513010 . + . ID=Hsa-Mir-34-P2a_3p;Alias=MIMAT0004676 chr11 . pre_miRNA 111513451 111513505 . + . ID=Hsa-Mir-34-P2b_pre;Alias=MI0000743 chr11 . miRNA 111513451 111513474 . + . ID=Hsa-Mir-34-P2b_5p;Alias=MIMAT0000686 chr11 . miRNA 111513484 111513506 . + . ID=Hsa-Mir-34-P2b_3p;Alias=MIMAT0004677 chr11 . pre_miRNA 122099769 122099830 . - . ID=Hsa-Mir-10-P3b_pre;Alias=MI0000446 chr11 . miRNA 122099769 122099791 . - . ID=Hsa-Mir-10-P3b_5p;Alias=MIMAT0000423 chr11 . miRNA 122099809 122099831 . - . ID=Hsa-Mir-10-P3b_3p;Alias=MIMAT0004592 chr11 . pre_miRNA 122146523 122146589 . - . ID=Hsa-Let-7-P1_pre;Alias=MI0000061 chr11 . miRNA 122146523 122146545 . - . ID=Hsa-Let-7-P1_5p;Alias=MIMAT0000062 chr11 . miRNA 122146568 122146590 . - . ID=Hsa-Let-7-P1_3p;Alias=MIMAT0010195 chr11 . pre_miRNA 122152240 122152296 . - . ID=Hsa-Mir-10-P2a_pre;Alias=MI0000102 chr11 . miRNA 122152240 122152262 . - . ID=Hsa-Mir-10-P2a_5p;Alias=MIMAT0000098 chr11 . miRNA 122152275 122152297 . - . ID=Hsa-Mir-10-P2a_3p;Alias=MIMAT0004512 chr12 . pre_miRNA 6963703 6963764 . + . ID=Hsa-Mir-8-P2b_pre;Alias=MI0000650 chr12 . miRNA 6963703 6963725 . + . ID=Hsa-Mir-8-P2b_5p;Alias=MIMAT0004657 chr12 . miRNA 6963742 6963765 . + . ID=Hsa-Mir-8-P2b_3p;Alias=MIMAT0000617 chr12 . pre_miRNA 6964113 6964177 . + . ID=Hsa-Mir-8-P1b_pre;Alias=MI0000457 chr12 . miRNA 6964113 6964135 . + . ID=Hsa-Mir-8-P1b_5p;Alias=MIMAT0004598 chr12 . miRNA 6964155 6964178 . + . ID=Hsa-Mir-8-P1b_3p;Alias=MIMAT0000432 chr12 . pre_miRNA 53991762 53991820 . + . ID=Hsa-Mir-196-P2_pre;Alias=MI0000279 chr12 . miRNA 53991762 53991785 . + . ID=Hsa-Mir-196-P2_5p;Alias=MIMAT0000226 chr12 . miRNA 53991798 53991821 . + . ID=Hsa-Mir-196-P2_3p;Alias=MIMAT0004562 chr12 . pre_miRNA 54033967 54034031 . + . ID=Hsa-Mir-615_pre;Alias=MI0003628 chr12 . miRNA 54033967 54033989 . + . ID=Hsa-Mir-615_5p;Alias=MIMAT0004804 chr12 . miRNA 54034010 54034032 . + . ID=Hsa-Mir-615_3p;Alias=MIMAT0003283 chr12 . pre_miRNA 54337239 54337299 . + . ID=Hsa-Mir-148-P2_pre;Alias=MI0000811 chr12 . miRNA 54337239 54337263 . + . ID=Hsa-Mir-148-P2_5p;Alias=MIMAT0004699 chr12 . miRNA 54337278 54337300 . + . ID=Hsa-Mir-148-P2_3p;Alias=MIMAT0000759 chr12 . pre_miRNA 57519183 57519244 . - . ID=Hsa-Mir-616_pre;Alias=MI0003629 chr12 . miRNA 57519183 57519207 . - . ID=Hsa-Mir-616_5p;Alias=MIMAT0003284 chr12 . miRNA 57519222 57519245 . - . ID=Hsa-Mir-616_3p;Alias=MIMAT0004805 chr12 . pre_miRNA 57824620 57824679 . - . ID=Hsa-Mir-26-P2_pre;Alias=MI0000750 chr12 . miRNA 57824620 57824642 . - . ID=Hsa-Mir-26-P2_5p;Alias=MIMAT0000082 chr12 . miRNA 57824658 57824680 . - . ID=Hsa-Mir-26-P2_3p;Alias=MIMAT0004681 chr12 . pre_miRNA 62603691 62603768 . + . ID=Hsa-Let-7-P12_pre;Alias=MI0000434 chr12 . miRNA 62603691 62603713 . + . ID=Hsa-Let-7-P12_5p;Alias=MIMAT0000415 chr12 . miRNA 62603747 62603769 . + . ID=Hsa-Let-7-P12_3p;Alias=MIMAT0004585 chr12 . pre_miRNA 79419261 79419319 . + . ID=Hsa-Mir-1252_pre;Alias=MI0006434 chr12 . miRNA 79419261 79419283 . + . ID=Hsa-Mir-1252_5p;Alias=MIMAT0005944 chr12 . miRNA 79419298 79419320 . + . ID=Hsa-Mir-1252_3p;Alias=MIMAT0026744 chr12 . pre_miRNA 86745079 86745136 . - . ID=Hsa-Mir-3059_pre chr12 . miRNA 86745079 86745103 . - . ID=Hsa-Mir-3059_5p chr12 . miRNA 86745115 86745137 . - . ID=Hsa-Mir-3059_3p chr12 . pre_miRNA 95308445 95308500 . + . ID=Hsa-Mir-331_pre;Alias=MI0000812 chr12 . miRNA 95308445 95308467 . + . ID=Hsa-Mir-331_5p;Alias=MIMAT0004700 chr12 . miRNA 95308480 95308501 . + . ID=Hsa-Mir-331_3p;Alias=MIMAT0000760 chr12 . pre_miRNA 97491913 97491971 . + . ID=Hsa-Mir-1251_pre;Alias=MI0006386 chr12 . miRNA 97491913 97491934 . + . ID=Hsa-Mir-1251_5p;Alias=MIMAT0005903 chr12 . miRNA 97491951 97491972 . + . ID=Hsa-Mir-1251_3p;Alias=MIMAT0026741 chr12 . pre_miRNA 97563834 97563893 . + . ID=Hsa-Mir-135-P2_pre;Alias=MI0000453 chr12 . miRNA 97563834 97563857 . + . ID=Hsa-Mir-135-P2_5p;Alias=MIMAT0000428 chr12 . miRNA 97563872 97563894 . + . ID=Hsa-Mir-135-P2_3p chr12 . pre_miRNA 128294105 128294166 . + . ID=Hsa-Mir-3612_pre;Alias=MI0016002 chr12 . miRNA 128294105 128294127 . + . ID=Hsa-Mir-3612_5p;Alias=MIMAT0017989 chr12 . miRNA 128294145 128294167 . + . ID=Hsa-Mir-3612_3p chr13 . pre_miRNA 49996428 49996486 . - . ID=Hsa-Mir-3613_pre;Alias=MI0016003 chr13 . miRNA 49996428 49996450 . - . ID=Hsa-Mir-3613_5p;Alias=MIMAT0017990 chr13 . miRNA 49996465 49996487 . - . ID=Hsa-Mir-3613_3p;Alias=MIMAT0017991 chr13 . pre_miRNA 50048984 50049048 . - . ID=Hsa-Mir-15-P2a_pre;Alias=MI0000070 chr13 . miRNA 50048984 50049006 . - . ID=Hsa-Mir-15-P2a_5p;Alias=MIMAT0000069 chr13 . miRNA 50049026 50049049 . - . ID=Hsa-Mir-15-P2a_3p;Alias=MIMAT0004489 chr13 . pre_miRNA 50049130 50049188 . - . ID=Hsa-Mir-15-P1a_pre;Alias=MI0000069 chr13 . miRNA 50049130 50049152 . - . ID=Hsa-Mir-15-P1a_5p;Alias=MIMAT0000068 chr13 . miRNA 50049167 50049189 . - . ID=Hsa-Mir-15-P1a_3p;Alias=MIMAT0004488 chr13 . pre_miRNA 91350618 91350676 . + . ID=Hsa-Mir-17-P1a_pre;Alias=MI0000071 chr13 . miRNA 91350618 91350641 . + . ID=Hsa-Mir-17-P1a_5p;Alias=MIMAT0000070 chr13 . miRNA 91350655 91350677 . + . ID=Hsa-Mir-17-P1a_3p;Alias=MIMAT0000071 chr13 . pre_miRNA 91350756 91350818 . + . ID=Hsa-Mir-17-P2a_pre;Alias=MI0000072 chr13 . miRNA 91350756 91350779 . + . ID=Hsa-Mir-17-P2a_5p;Alias=MIMAT0000072 chr13 . miRNA 91350797 91350819 . + . ID=Hsa-Mir-17-P2a_3p;Alias=MIMAT0002891 chr13 . pre_miRNA 91350904 91350961 . + . ID=Hsa-Mir-19-P1_pre;Alias=MI0000073 chr13 . miRNA 91350904 91350925 . + . ID=Hsa-Mir-19-P1_5p;Alias=MIMAT0004490 chr13 . miRNA 91350939 91350962 . + . ID=Hsa-Mir-19-P1_3p;Alias=MIMAT0000073 chr13 . pre_miRNA 91351072 91351130 . + . ID=Hsa-Mir-17-P3a_pre;Alias=MI0000076 chr13 . miRNA 91351072 91351095 . + . ID=Hsa-Mir-17-P3a_5p;Alias=MIMAT0000075 chr13 . miRNA 91351108 91351131 . + . ID=Hsa-Mir-17-P3a_3p;Alias=MIMAT0004493 chr13 . pre_miRNA 91351207 91351267 . + . ID=Hsa-Mir-19-P2a_pre;Alias=MI0000074 chr13 . miRNA 91351207 91351230 . + . ID=Hsa-Mir-19-P2a_5p;Alias=MIMAT0004491 chr13 . miRNA 91351245 91351268 . + . ID=Hsa-Mir-19-P2a_3p;Alias=MIMAT0000074 chr13 . pre_miRNA 91351324 91351382 . + . ID=Hsa-Mir-92-P1a_pre;Alias=MI0000093 chr13 . miRNA 91351324 91351347 . + . ID=Hsa-Mir-92-P1a_5p;Alias=MIMAT0004507 chr13 . miRNA 91351361 91351383 . + . ID=Hsa-Mir-92-P1a_3p;Alias=MIMAT0000092 chr13 . pre_miRNA 101967666 101967724 . - . ID=Hsa-Mir-2681_pre;Alias=MI0012062 chr13 . miRNA 101967666 101967687 . - . ID=Hsa-Mir-2681_5p;Alias=MIMAT0013515 chr13 . miRNA 101967704 101967725 . - . ID=Hsa-Mir-2681_3p;Alias=MIMAT0013516 chr14 . pre_miRNA 23388602 23388658 . - . ID=Hsa-Mir-208-P1_pre;Alias=MI0000251 chr14 . miRNA 23388602 23388624 . - . ID=Hsa-Mir-208-P1_5p;Alias=MIMAT0026474 chr14 . miRNA 23388637 23388659 . - . ID=Hsa-Mir-208-P1_3p;Alias=MIMAT0000241 chr14 . pre_miRNA 23417997 23418053 . - . ID=Hsa-Mir-208-P2_pre;Alias=MI0005570 chr14 . miRNA 23417997 23418019 . - . ID=Hsa-Mir-208-P2_5p;Alias=MIMAT0026722 chr14 . miRNA 23418032 23418054 . - . ID=Hsa-Mir-208-P2_3p;Alias=MIMAT0004960 chr14 . pre_miRNA 27633210 27633269 . - . ID=Hsa-Mir-3171_pre;Alias=MI0014202 chr14 . miRNA 27633210 27633232 . - . ID=Hsa-Mir-3171_5p;Alias=MIMAT0015046 chr14 . miRNA 27633248 27633270 . - . ID=Hsa-Mir-3171_3p chr14 . pre_miRNA 31014670 31014727 . - . ID=Hsa-Mir-624_pre;Alias=MI0003638 chr14 . miRNA 31014670 31014692 . - . ID=Hsa-Mir-624_5p;Alias=MIMAT0003293 chr14 . miRNA 31014706 31014728 . - . ID=Hsa-Mir-624_3p;Alias=MIMAT0004807 chr14 . pre_miRNA 59646962 59647021 . - . ID=Hsa-Mir-5586_pre;Alias=MI0019143 chr14 . miRNA 59646962 59646984 . - . ID=Hsa-Mir-5586_5p;Alias=MIMAT0022287 chr14 . miRNA 59647000 59647022 . - . ID=Hsa-Mir-5586_3p;Alias=MIMAT0022288 chr14 . pre_miRNA 65471114 65471172 . - . ID=Hsa-Mir-625_pre;Alias=MI0003639 chr14 . miRNA 65471114 65471136 . - . ID=Hsa-Mir-625_5p;Alias=MIMAT0003294 chr14 . miRNA 65471151 65471173 . - . ID=Hsa-Mir-625_3p;Alias=MIMAT0004808 chr14 . pre_miRNA 95137921 95137982 . - . ID=Hsa-Mir-3173_pre;Alias=MI0014204 chr14 . miRNA 95137921 95137944 . - . ID=Hsa-Mir-3173_5p;Alias=MIMAT0019214 chr14 . miRNA 95137960 95137983 . - . ID=Hsa-Mir-3173_3p;Alias=MIMAT0015048 chr14 . pre_miRNA 100109673 100109739 . + . ID=Hsa-Mir-342_pre;Alias=MI0000805 chr14 . miRNA 100109673 100109700 . + . ID=Hsa-Mir-342_5p;Alias=MIMAT0004694 chr14 . miRNA 100109715 100109740 . + . ID=Hsa-Mir-342_3p;Alias=MIMAT0000753 chr14 . pre_miRNA 100307876 100307933 . + . ID=Hsa-Mir-345_pre;Alias=MI0000825 chr14 . miRNA 100307876 100307897 . + . ID=Hsa-Mir-345_5p;Alias=MIMAT0000772 chr14 . miRNA 100307913 100307934 . + . ID=Hsa-Mir-345_3p;Alias=MIMAT0022698 chr14 . pre_miRNA 100852409 100852470 . + . ID=Hsa-Mir-770_pre;Alias=MI0005118 chr14 . miRNA 100852409 100852432 . + . ID=Hsa-Mir-770_5p;Alias=MIMAT0003948 chr14 . miRNA 100852449 100852471 . + . ID=Hsa-Mir-770_3p chr14 . pre_miRNA 100869075 100869137 . + . ID=Hsa-Mir-493_pre;Alias=MI0003132 chr14 . miRNA 100869075 100869097 . + . ID=Hsa-Mir-493_5p;Alias=MIMAT0002813 chr14 . miRNA 100869116 100869138 . + . ID=Hsa-Mir-493_3p;Alias=MIMAT0003161 chr14 . pre_miRNA 100874515 100874574 . + . ID=Hsa-Mir-337_pre;Alias=MI0000806 chr14 . miRNA 100874515 100874535 . + . ID=Hsa-Mir-337_5p;Alias=MIMAT0004695 chr14 . miRNA 100874554 100874575 . + . ID=Hsa-Mir-337_3p;Alias=MIMAT0000754 chr14 . pre_miRNA 100881026 100881089 . + . ID=Hsa-Mir-431_pre;Alias=MI0001721 chr14 . miRNA 100881026 100881047 . + . ID=Hsa-Mir-431_5p;Alias=MIMAT0001625 chr14 . miRNA 100881069 100881090 . + . ID=Hsa-Mir-431_3p;Alias=MIMAT0004757 chr14 . pre_miRNA 100881897 100881970 . + . ID=Hsa-Mir-433_pre;Alias=MI0001723 chr14 . miRNA 100881897 100881919 . + . ID=Hsa-Mir-433_5p;Alias=MIMAT0026554 chr14 . miRNA 100881949 100881971 . + . ID=Hsa-Mir-433_3p;Alias=MIMAT0001627 chr14 . pre_miRNA 100883001 100883056 . + . ID=Hsa-Mir-127_pre;Alias=MI0000472 chr14 . miRNA 100883001 100883024 . + . ID=Hsa-Mir-127_5p;Alias=MIMAT0004604 chr14 . miRNA 100883035 100883057 . + . ID=Hsa-Mir-127_3p;Alias=MIMAT0000446 chr14 . pre_miRNA 100884496 100884564 . + . ID=Hsa-Mir-432_pre;Alias=MI0003133 chr14 . miRNA 100884496 100884519 . + . ID=Hsa-Mir-432_5p;Alias=MIMAT0002814 chr14 . miRNA 100884543 100884565 . + . ID=Hsa-Mir-432_3p;Alias=MIMAT0002815 chr14 . pre_miRNA 100884716 100884771 . + . ID=Hsa-Mir-136_pre;Alias=MI0000475 chr14 . miRNA 100884716 100884739 . + . ID=Hsa-Mir-136_5p;Alias=MIMAT0000448 chr14 . miRNA 100884750 100884772 . + . ID=Hsa-Mir-136_3p;Alias=MIMAT0004606 chr14 . pre_miRNA 100911151 100911207 . + . ID=Hsa-Mir-370_pre;Alias=MI0000778 chr14 . miRNA 100911151 100911173 . + . ID=Hsa-Mir-370_5p;Alias=MIMAT0026483 chr14 . miRNA 100911186 100911208 . + . ID=Hsa-Mir-370_3p;Alias=MIMAT0000722 chr14 . pre_miRNA 101022071 101022129 . + . ID=Hsa-Mir-154-P7_pre;Alias=MI0000787 chr14 . miRNA 101022071 101022092 . + . ID=Hsa-Mir-154-P7_5p;Alias=MIMAT0000733 chr14 . miRNA 101022109 101022130 . + . ID=Hsa-Mir-154-P7_3p;Alias=MIMAT0004690 chr14 . pre_miRNA 101023340 101023395 . + . ID=Hsa-Mir-154-P13_pre;Alias=MI0003675 chr14 . miRNA 101023340 101023361 . + . ID=Hsa-Mir-154-P13_5p;Alias=MIMAT0003329 chr14 . miRNA 101023375 101023396 . + . ID=Hsa-Mir-154-P13_3p;Alias=MIMAT0004813 chr14 . pre_miRNA 101023800 101023852 . + . ID=Hsa-Mir-154-P2_pre;Alias=MI0000744 chr14 . miRNA 101023800 101023821 . + . ID=Hsa-Mir-154-P2_5p;Alias=MIMAT0002890 chr14 . miRNA 101023832 101023853 . + . ID=Hsa-Mir-154-P2_3p;Alias=MIMAT0000687 chr14 . pre_miRNA 101025020 101025076 . + . ID=Hsa-Mir-154-P8_pre;Alias=MI0000788 chr14 . miRNA 101025020 101025042 . + . ID=Hsa-Mir-154-P8_5p;Alias=MIMAT0000734 chr14 . miRNA 101025056 101025077 . + . ID=Hsa-Mir-154-P8_3p;Alias=MIMAT0000735 chr14 . pre_miRNA 101025585 101025640 . + . ID=Hsa-Mir-154-P30_pre;Alias=MI0006656 chr14 . miRNA 101025585 101025606 . + . ID=Hsa-Mir-154-P30_5p chr14 . miRNA 101025620 101025641 . + . ID=Hsa-Mir-154-P30_3p;Alias=MIMAT0005955 chr14 . pre_miRNA 101025747 101025802 . + . ID=Hsa-Mir-154-P3a_pre;Alias=MI0000807 chr14 . miRNA 101025747 101025768 . + . ID=Hsa-Mir-154-P3a_5p;Alias=MIMAT0004696 chr14 . miRNA 101025782 101025803 . + . ID=Hsa-Mir-154-P3a_3p;Alias=MIMAT0000755 chr14 . pre_miRNA 101026035 101026092 . + . ID=Hsa-Mir-154-P26_pre;Alias=MI0003757 chr14 . miRNA 101026035 101026057 . + . ID=Hsa-Mir-154-P26_5p;Alias=MIMAT0022929 chr14 . miRNA 101026071 101026093 . + . ID=Hsa-Mir-154-P26_3p;Alias=MIMAT0003879 chr14 . pre_miRNA 101026796 101026855 . + . ID=Hsa-Mir-154-P4a_pre;Alias=MI0001725 chr14 . miRNA 101026796 101026820 . + . ID=Hsa-Mir-154-P4a_5p;Alias=MIMAT0026555 chr14 . miRNA 101026834 101026856 . + . ID=Hsa-Mir-154-P4a_3p;Alias=MIMAT0001629 chr14 . pre_miRNA 101027113 101027172 . + . ID=Hsa-Mir-154-P4b_pre;Alias=MI0001726 chr14 . miRNA 101027113 101027137 . + . ID=Hsa-Mir-154-P4b_5p;Alias=MIMAT0026555 chr14 . miRNA 101027151 101027173 . + . ID=Hsa-Mir-154-P4b_3p;Alias=MIMAT0001629 chr14 . pre_miRNA 101029648 101029703 . + . ID=Hsa-Mir-154-P18_pre;Alias=MI0003134 chr14 . miRNA 101029648 101029671 . + . ID=Hsa-Mir-154-P18_5p;Alias=MIMAT0026607 chr14 . miRNA 101029681 101029704 . + . ID=Hsa-Mir-154-P18_3p;Alias=MIMAT0002816 chr14 . pre_miRNA 101030065 101030119 . + . ID=Hsa-Mir-154-P29_pre;Alias=MI0014205 chr14 . miRNA 101030065 101030087 . + . ID=Hsa-Mir-154-P29_5p;Alias=MIMAT0015049 chr14 . miRNA 101030097 101030120 . + . ID=Hsa-Mir-154-P29_3p chr14 . pre_miRNA 101031998 101032054 . + . ID=Hsa-Mir-154-P22_pre;Alias=MI0005565 chr14 . miRNA 101031998 101032019 . + . ID=Hsa-Mir-154-P22_5p chr14 . miRNA 101032033 101032055 . + . ID=Hsa-Mir-154-P22_3p;Alias=MIMAT0004954 chr14 . pre_miRNA 101033768 101033825 . + . ID=Hsa-Mir-154-P19_pre;Alias=MI0003135 chr14 . miRNA 101033768 101033790 . + . ID=Hsa-Mir-154-P19_5p;Alias=MIMAT0022924 chr14 . miRNA 101033804 101033826 . + . ID=Hsa-Mir-154-P19_3p;Alias=MIMAT0002817 chr14 . pre_miRNA 101039695 101039752 . + . ID=Hsa-Mir-376-P4_pre;Alias=MI0000776 chr14 . miRNA 101039695 101039717 . + . ID=Hsa-Mir-376-P4_5p;Alias=MIMAT0022861 chr14 . miRNA 101039732 101039753 . + . ID=Hsa-Mir-376-P4_3p;Alias=MIMAT0000720 chr14 . pre_miRNA 101040081 101040138 . + . ID=Hsa-Mir-376-P2_pre;Alias=MI0003529 chr14 . miRNA 101040081 101040103 . + . ID=Hsa-Mir-376-P2_5p;Alias=MIMAT0022928 chr14 . miRNA 101040118 101040139 . + . ID=Hsa-Mir-376-P2_3p;Alias=MIMAT0000729 chr14 . pre_miRNA 101040234 101040289 . + . ID=Hsa-Mir-154-P23_pre;Alias=MI0003676 chr14 . miRNA 101040234 101040256 . + . ID=Hsa-Mir-154-P23_5p;Alias=MIMAT0003330 chr14 . miRNA 101040269 101040290 . + . ID=Hsa-Mir-154-P23_3p;Alias=MIMAT0004814 chr14 . pre_miRNA 101040460 101040517 . + . ID=Hsa-Mir-376-P3_pre;Alias=MI0002466 chr14 . miRNA 101040460 101040482 . + . ID=Hsa-Mir-376-P3_5p;Alias=MIMAT0022923 chr14 . miRNA 101040497 101040518 . + . ID=Hsa-Mir-376-P3_3p;Alias=MIMAT0002172 chr14 . pre_miRNA 101040788 101040845 . + . ID=Hsa-Mir-376-P1_pre;Alias=MI0000784 chr14 . miRNA 101040788 101040810 . + . ID=Hsa-Mir-376-P1_5p;Alias=MIMAT0003386 chr14 . miRNA 101040825 101040846 . + . ID=Hsa-Mir-376-P1_3p;Alias=MIMAT0000729 chr14 . pre_miRNA 101042991 101043050 . + . ID=Hsa-Mir-154-P28a_pre;Alias=MI0003844 chr14 . miRNA 101042991 101043013 . + . ID=Hsa-Mir-154-P28a_5p;Alias=MIMAT0005798 chr14 . miRNA 101043029 101043051 . + . ID=Hsa-Mir-154-P28a_3p;Alias=MIMAT0022838 chr14 . pre_miRNA 101044212 101044271 . + . ID=Hsa-Mir-154-P28b_pre;Alias=MI0003821 chr14 . miRNA 101044212 101044234 . + . ID=Hsa-Mir-154-P28b_5p;Alias=MIMAT0005798 chr14 . miRNA 101044250 101044272 . + . ID=Hsa-Mir-154-P28b_3p;Alias=MIMAT0022713 chr14 . pre_miRNA 101045927 101045989 . + . ID=Hsa-Mir-154-P9_pre;Alias=MI0000789 chr14 . miRNA 101045927 101045950 . + . ID=Hsa-Mir-154-P9_5p;Alias=MIMAT0022862 chr14 . miRNA 101045968 101045990 . + . ID=Hsa-Mir-154-P9_3p;Alias=MIMAT0000736 chr14 . pre_miRNA 101046469 101046526 . + . ID=Hsa-Mir-154-P17_pre;Alias=MI0003530 chr14 . miRNA 101046469 101046491 . + . ID=Hsa-Mir-154-P17_5p;Alias=MIMAT0026614 chr14 . miRNA 101046505 101046527 . + . ID=Hsa-Mir-154-P17_3p;Alias=MIMAT0003180 chr14 . pre_miRNA 101047329 101047392 . + . ID=Hsa-Mir-154-P21_pre;Alias=MI0003514 chr14 . miRNA 101047329 101047353 . + . ID=Hsa-Mir-154-P21_5p;Alias=MIMAT0003163 chr14 . miRNA 101047369 101047393 . + . ID=Hsa-Mir-154-P21_3p;Alias=MIMAT0022705 chr14 . pre_miRNA 101047911 101047969 . + . ID=Hsa-Mir-154-P27_pre;Alias=MI0005540 chr14 . miRNA 101047911 101047933 . + . ID=Hsa-Mir-154-P27_5p;Alias=MIMAT0026719 chr14 . miRNA 101047949 101047970 . + . ID=Hsa-Mir-154-P27_3p;Alias=MIMAT0004921 chr14 . pre_miRNA 101048676 101048733 . + . ID=Hsa-Mir-544_pre;Alias=MI0003515 chr14 . miRNA 101048676 101048697 . + . ID=Hsa-Mir-544_5p chr14 . miRNA 101048712 101048734 . + . ID=Hsa-Mir-544_3p;Alias=MIMAT0003164 chr14 . pre_miRNA 101049572 101049631 . + . ID=Hsa-Mir-154-P24_pre;Alias=MI0003677 chr14 . miRNA 101049572 101049594 . + . ID=Hsa-Mir-154-P24_5p;Alias=MIMAT0026626 chr14 . miRNA 101049610 101049632 . + . ID=Hsa-Mir-154-P24_3p;Alias=MIMAT0003331 chr14 . pre_miRNA 101052458 101052515 . + . ID=Hsa-Mir-154-P16_pre;Alias=MI0002471 chr14 . miRNA 101052458 101052480 . + . ID=Hsa-Mir-154-P16_5p;Alias=MIMAT0026559 chr14 . miRNA 101052494 101052516 . + . ID=Hsa-Mir-154-P16_3p;Alias=MIMAT0002178 chr14 . pre_miRNA 101054316 101054374 . + . ID=Hsa-Mir-154-P10_pre;Alias=MI0000790 chr14 . miRNA 101054316 101054338 . + . ID=Hsa-Mir-154-P10_5p;Alias=MIMAT0000737 chr14 . miRNA 101054352 101054375 . + . ID=Hsa-Mir-154-P10_3p;Alias=MIMAT0022697 chr14 . pre_miRNA 101054694 101054754 . + . ID=Hsa-Mir-134_pre;Alias=MI0000474 chr14 . miRNA 101054694 101054716 . + . ID=Hsa-Mir-134_5p;Alias=MIMAT0000447 chr14 . miRNA 101054733 101054755 . + . ID=Hsa-Mir-134_3p;Alias=MIMAT0026481 chr14 . pre_miRNA 101055427 101055485 . + . ID=Hsa-Mir-154-P15_pre;Alias=MI0002469 chr14 . miRNA 101055427 101055449 . + . ID=Hsa-Mir-154-P15_5p;Alias=MIMAT0002175 chr14 . miRNA 101055464 101055486 . + . ID=Hsa-Mir-154-P15_3p;Alias=MIMAT0002176 chr14 . pre_miRNA 101056233 101056289 . + . ID=Hsa-Mir-154-P3b_pre;Alias=MI0014206 chr14 . miRNA 101056233 101056256 . + . ID=Hsa-Mir-154-P3b_5p;Alias=MIMAT0001630 chr14 . miRNA 101056269 101056290 . + . ID=Hsa-Mir-154-P3b_3p;Alias=MIMAT0015050 chr14 . pre_miRNA 101059769 101059826 . + . ID=Hsa-Mir-154-P1_pre;Alias=MI0000480 chr14 . miRNA 101059769 101059791 . + . ID=Hsa-Mir-154-P1_5p;Alias=MIMAT0000452 chr14 . miRNA 101059805 101059827 . + . ID=Hsa-Mir-154-P1_3p;Alias=MIMAT0000453 chr14 . pre_miRNA 101060596 101060649 . + . ID=Hsa-Mir-154-P20_pre;Alias=MI0003136 chr14 . miRNA 101060596 101060618 . + . ID=Hsa-Mir-154-P20_5p chr14 . miRNA 101060628 101060650 . + . ID=Hsa-Mir-154-P20_3p;Alias=MIMAT0002818 chr14 . pre_miRNA 101062056 101062115 . + . ID=Hsa-Mir-154-P6_pre;Alias=MI0000785 chr14 . miRNA 101062056 101062078 . + . ID=Hsa-Mir-154-P6_5p;Alias=MIMAT0004689 chr14 . miRNA 101062094 101062116 . + . ID=Hsa-Mir-154-P6_3p;Alias=MIMAT0000730 chr14 . pre_miRNA 101064504 101064569 . + . ID=Hsa-Mir-541_pre;Alias=MI0005539 chr14 . miRNA 101064504 101064529 . + . ID=Hsa-Mir-541_5p;Alias=MIMAT0004919 chr14 . miRNA 101064548 101064570 . + . ID=Hsa-Mir-541_3p;Alias=MIMAT0004920 chr14 . pre_miRNA 101065465 101065520 . + . ID=Hsa-Mir-154-P14_pre;Alias=MI0002464 chr14 . miRNA 101065465 101065488 . + . ID=Hsa-Mir-154-P14_5p;Alias=MIMAT0026557 chr14 . miRNA 101065499 101065521 . + . ID=Hsa-Mir-154-P14_3p;Alias=MIMAT0002170 chr14 . pre_miRNA 101065606 101065661 . + . ID=Hsa-Mir-154-P5_pre;Alias=MI0000777 chr14 . miRNA 101065606 101065627 . + . ID=Hsa-Mir-154-P5_5p;Alias=MIMAT0001621 chr14 . miRNA 101065641 101065662 . + . ID=Hsa-Mir-154-P5_3p;Alias=MIMAT0000721 chr14 . pre_miRNA 101065925 101065981 . + . ID=Hsa-Mir-154-P12_pre;Alias=MI0002465 chr14 . miRNA 101065925 101065946 . + . ID=Hsa-Mir-154-P12_5p;Alias=MIMAT0026558 chr14 . miRNA 101065961 101065982 . + . ID=Hsa-Mir-154-P12_3p;Alias=MIMAT0002171 chr14 . pre_miRNA 101066731 101066786 . + . ID=Hsa-Mir-154-P25_pre;Alias=MI0003678 chr14 . miRNA 101066731 101066752 . + . ID=Hsa-Mir-154-P25_5p;Alias=MIMAT0026627 chr14 . miRNA 101066766 101066787 . + . ID=Hsa-Mir-154-P25_3p;Alias=MIMAT0003332 chr14 . pre_miRNA 101560326 101560383 . - . ID=Hsa-Mir-1247_pre;Alias=MI0006382 chr14 . miRNA 101560326 101560348 . - . ID=Hsa-Mir-1247_5p;Alias=MIMAT0005899 chr14 . miRNA 101560363 101560384 . - . ID=Hsa-Mir-1247_3p;Alias=MIMAT0022721 chr14 . pre_miRNA 104117431 104117490 . + . ID=Hsa-Mir-203_pre;Alias=MI0000283 chr14 . miRNA 104117431 104117454 . + . ID=Hsa-Mir-203_5p;Alias=MIMAT0031890 chr14 . miRNA 104117469 104117491 . + . ID=Hsa-Mir-203_3p;Alias=MIMAT0000264 chr15 . pre_miRNA 31065059 31065116 . - . ID=Hsa-Mir-204-P2_pre;Alias=MI0000287 chr15 . miRNA 31065059 31065081 . - . ID=Hsa-Mir-204-P2_5p;Alias=MIMAT0000268 chr15 . miRNA 31065096 31065117 . - . ID=Hsa-Mir-204-P2_3p;Alias=MIMAT0022694 chr15 . pre_miRNA 35372279 35372341 . - . ID=Hsa-Mir-3942_pre;Alias=MI0016599 chr15 . miRNA 35372279 35372301 . - . ID=Hsa-Mir-3942_5p;Alias=MIMAT0018358 chr15 . miRNA 35372320 35372342 . - . ID=Hsa-Mir-3942_3p;Alias=MIMAT0019230 chr15 . pre_miRNA 42199593 42199650 . - . ID=Hsa-Mir-627_pre;Alias=MI0003641 chr15 . miRNA 42199593 42199616 . - . ID=Hsa-Mir-627_5p;Alias=MIMAT0003296 chr15 . miRNA 42199628 42199651 . - . ID=Hsa-Mir-627_3p;Alias=MIMAT0026623 chr15 . pre_miRNA 45433061 45433118 . + . ID=Hsa-Mir-147_pre;Alias=MI0005544 chr15 . miRNA 45433061 45433082 . + . ID=Hsa-Mir-147_5p chr15 . miRNA 45433098 45433119 . + . ID=Hsa-Mir-147_3p;Alias=MIMAT0004928 chr15 . pre_miRNA 52277131 52277188 . - . ID=Hsa-Mir-1266_pre;Alias=MI0006403 chr15 . miRNA 52277131 52277154 . - . ID=Hsa-Mir-1266_5p;Alias=MIMAT0005920 chr15 . miRNA 52277167 52277189 . - . ID=Hsa-Mir-1266_3p;Alias=MIMAT0026742 chr15 . pre_miRNA 55372952 55373012 . - . ID=Hsa-Mir-628_pre;Alias=MI0003642 chr15 . miRNA 55372952 55372974 . - . ID=Hsa-Mir-628_5p;Alias=MIMAT0004809 chr15 . miRNA 55372990 55373013 . - . ID=Hsa-Mir-628_3p;Alias=MIMAT0003297 chr15 . pre_miRNA 59171193 59171249 . - . ID=Hsa-Mir-2116_pre;Alias=MI0010635 chr15 . miRNA 59171193 59171214 . - . ID=Hsa-Mir-2116_5p;Alias=MIMAT0011160 chr15 . miRNA 59171229 59171250 . - . ID=Hsa-Mir-2116_3p;Alias=MIMAT0011161 chr15 . pre_miRNA 62823971 62824028 . + . ID=Hsa-Mir-190-P1_pre;Alias=MI0000486 chr15 . miRNA 62823971 62823995 . + . ID=Hsa-Mir-190-P1_5p;Alias=MIMAT0000458 chr15 . miRNA 62824007 62824029 . + . ID=Hsa-Mir-190-P1_3p;Alias=MIMAT0026482 chr15 . pre_miRNA 70079387 70079447 . - . ID=Hsa-Mir-629_pre;Alias=MI0003643 chr15 . miRNA 70079387 70079409 . - . ID=Hsa-Mir-629_5p;Alias=MIMAT0004810 chr15 . miRNA 70079426 70079448 . - . ID=Hsa-Mir-629_3p;Alias=MIMAT0003298 chr15 . pre_miRNA 79209800 79209861 . + . ID=Hsa-Mir-184_pre;Alias=MI0000481 chr15 . miRNA 79209800 79209823 . + . ID=Hsa-Mir-184_5p chr15 . miRNA 79209840 79209862 . + . ID=Hsa-Mir-184_3p;Alias=MIMAT0000454 chr15 . pre_miRNA 85770508 85770567 . - . ID=Hsa-Mir-1276_pre;Alias=MI0006416 chr15 . miRNA 85770508 85770528 . - . ID=Hsa-Mir-1276_5p;Alias=MIMAT0005930 chr15 . miRNA 85770547 85770568 . - . ID=Hsa-Mir-1276_3p chr15 . pre_miRNA 88608121 88608178 . + . ID=Hsa-Mir-1179_pre;Alias=MI0006272 chr15 . miRNA 88608121 88608143 . + . ID=Hsa-Mir-1179_5p;Alias=MIMAT0005824 chr15 . miRNA 88608157 88608179 . + . ID=Hsa-Mir-1179_3p chr15 . pre_miRNA 88611856 88611917 . + . ID=Hsa-Mir-7-P2_pre;Alias=MI0000264 chr15 . miRNA 88611856 88611880 . + . ID=Hsa-Mir-7-P2_5p;Alias=MIMAT0000252 chr15 . miRNA 88611896 88611918 . + . ID=Hsa-Mir-7-P2_3p;Alias=MIMAT0004554 chr15 . pre_miRNA 89368032 89368093 . + . ID=Hsa-Mir-9-P3_pre;Alias=MI0000468 chr15 . miRNA 89368032 89368055 . + . ID=Hsa-Mir-9-P3_5p;Alias=MIMAT0000441 chr15 . miRNA 89368071 89368094 . + . ID=Hsa-Mir-9-P3_3p;Alias=MIMAT0000442 chr15 . pre_miRNA 89850645 89850710 . - . ID=Hsa-Mir-5094_pre;Alias=MI0017983 chr15 . miRNA 89850645 89850669 . - . ID=Hsa-Mir-5094_5p;Alias=MIMAT0021086 chr15 . miRNA 89850687 89850711 . - . ID=Hsa-Mir-5094_3p chr15 . pre_miRNA 89883949 89884010 . - . ID=Hsa-Mir-5009_pre;Alias=MI0017877 chr15 . miRNA 89883949 89883973 . - . ID=Hsa-Mir-5009_5p;Alias=MIMAT0021041 chr15 . miRNA 89883989 89884011 . - . ID=Hsa-Mir-5009_3p;Alias=MIMAT0021042 chr15 . pre_miRNA 90006764 90006833 . + . ID=Hsa-Mir-3174_pre;Alias=MI0014208 chr15 . miRNA 90006764 90006787 . + . ID=Hsa-Mir-3174_5p;Alias=MIMAT0015051 chr15 . miRNA 90006812 90006834 . + . ID=Hsa-Mir-3174_3p chr16 . pre_miRNA 14303980 14304038 . + . ID=Hsa-Mir-193-P1b_pre;Alias=MI0003137 chr16 . miRNA 14303980 14304002 . + . ID=Hsa-Mir-193-P1b_5p;Alias=MIMAT0004767 chr16 . miRNA 14304017 14304039 . + . ID=Hsa-Mir-193-P1b_3p;Alias=MIMAT0002819 chr16 . pre_miRNA 14309300 14309361 . + . ID=Hsa-Mir-193-P2b_pre;Alias=MI0000767 chr16 . miRNA 14309300 14309323 . + . ID=Hsa-Mir-193-P2b_5p;Alias=MIMAT0009199 chr16 . miRNA 14309340 14309362 . + . ID=Hsa-Mir-193-P2b_3p;Alias=MIMAT0000710 chr16 . pre_miRNA 14901521 14901580 . + . ID=Hsa-Mir-3179-P1_pre;Alias=MI0014213 chr16 . miRNA 14901521 14901543 . + . ID=Hsa-Mir-3179-P1_5p chr16 . miRNA 14901559 14901581 . + . ID=Hsa-Mir-3179-P1_3p;Alias=MIMAT0015056 chr16 . pre_miRNA 14911237 14911302 . + . ID=Hsa-Mir-3180-P1_pre;Alias=MI0014214 chr16 . miRNA 14911237 14911259 . + . ID=Hsa-Mir-3180-P1_5p;Alias=MIMAT0015057 chr16 . miRNA 14911281 14911303 . + . ID=Hsa-Mir-3180-P1_3p;Alias=MIMAT0015058 chr16 . pre_miRNA 16300172 16300231 . + . ID=Hsa-Mir-3179-P2_pre;Alias=MI0014216 chr16 . miRNA 16300172 16300194 . + . ID=Hsa-Mir-3179-P2_5p chr16 . miRNA 16300210 16300232 . + . ID=Hsa-Mir-3179-P2_3p;Alias=MIMAT0015056 chr16 . pre_miRNA 16309892 16309957 . + . ID=Hsa-Mir-3180-P2_pre;Alias=MI0014215 chr16 . miRNA 16309892 16309914 . + . ID=Hsa-Mir-3180-P2_5p;Alias=MIMAT0015057 chr16 . miRNA 16309936 16309958 . + . ID=Hsa-Mir-3180-P2_3p;Alias=MIMAT0015058 chr16 . pre_miRNA 18402189 18402254 . - . ID=Hsa-Mir-3180-P3_pre;Alias=MI0014217 chr16 . miRNA 18402189 18402211 . - . ID=Hsa-Mir-3180-P3_5p;Alias=MIMAT0015057 chr16 . miRNA 18402233 18402255 . - . ID=Hsa-Mir-3180-P3_3p;Alias=MIMAT0015058 chr16 . pre_miRNA 18411905 18411964 . - . ID=Hsa-Mir-3179-P3_pre;Alias=MI0014221 chr16 . miRNA 18411905 18411927 . - . ID=Hsa-Mir-3179-P3_5p chr16 . miRNA 18411943 18411965 . - . ID=Hsa-Mir-3179-P3_3p;Alias=MIMAT0015056 chr16 . pre_miRNA 18494504 18494563 . - . ID=Hsa-Mir-3179-P4_pre;Alias=MI0031510 chr16 . miRNA 18494504 18494526 . - . ID=Hsa-Mir-3179-P4_5p chr16 . miRNA 18494542 18494564 . - . ID=Hsa-Mir-3179-P4_3p;Alias=MIMAT0015056 chr16 . pre_miRNA 56858527 56858594 . + . ID=Hsa-Mir-138-P2_pre;Alias=MI0000455 chr16 . miRNA 56858527 56858550 . + . ID=Hsa-Mir-138-P2_5p;Alias=MIMAT0000430 chr16 . miRNA 56858574 56858595 . + . ID=Hsa-Mir-138-P2_3p;Alias=MIMAT0004596 chr16 . pre_miRNA 67202327 67202389 . - . ID=Hsa-Mir-328_pre;Alias=MI0000804 chr16 . miRNA 67202327 67202350 . - . ID=Hsa-Mir-328_5p;Alias=MIMAT0026486 chr16 . miRNA 67202368 67202390 . - . ID=Hsa-Mir-328_3p;Alias=MIMAT0000752 chr16 . pre_miRNA 69933103 69933164 . + . ID=Hsa-Mir-140_pre;Alias=MI0000456 chr16 . miRNA 69933103 69933125 . + . ID=Hsa-Mir-140_5p;Alias=MIMAT0000431 chr16 . miRNA 69933143 69933165 . + . ID=Hsa-Mir-140_3p;Alias=MIMAT0004597 chr17 . pre_miRNA 1713914 1713973 . - . ID=Hsa-Mir-22-P1_pre;Alias=MI0000078 chr17 . miRNA 1713914 1713936 . - . ID=Hsa-Mir-22-P1_5p;Alias=MIMAT0004495 chr17 . miRNA 1713952 1713974 . - . ID=Hsa-Mir-22-P1_3p;Alias=MIMAT0000077 chr17 . pre_miRNA 2049929 2049986 . - . ID=Hsa-Mir-132-P1_pre;Alias=MI0000449 chr17 . miRNA 2049929 2049951 . - . ID=Hsa-Mir-132-P1_5p;Alias=MIMAT0004594 chr17 . miRNA 2049965 2049987 . - . ID=Hsa-Mir-132-P1_3p;Alias=MIMAT0000426 chr17 . pre_miRNA 2050289 2050350 . - . ID=Hsa-Mir-132-P2_pre;Alias=MI0000288 chr17 . miRNA 2050289 2050312 . - . ID=Hsa-Mir-132-P2_5p;Alias=MIMAT0022695 chr17 . miRNA 2050329 2050351 . - . ID=Hsa-Mir-132-P2_3p;Alias=MIMAT0000269 chr17 . pre_miRNA 7017627 7017687 . - . ID=Hsa-Mir-15-P2c_pre;Alias=MI0000489 chr17 . miRNA 7017627 7017649 . - . ID=Hsa-Mir-15-P2c_5p;Alias=MIMAT0000461 chr17 . miRNA 7017665 7017688 . - . ID=Hsa-Mir-15-P2c_3p;Alias=MIMAT0004615 chr17 . pre_miRNA 7017938 7017999 . - . ID=Hsa-Mir-15-P1c_pre;Alias=MI0003138 chr17 . miRNA 7017938 7017960 . - . ID=Hsa-Mir-15-P1c_5p;Alias=MIMAT0002820 chr17 . miRNA 7017978 7018000 . - . ID=Hsa-Mir-15-P1c_3p;Alias=MIMAT0004768 chr17 . pre_miRNA 7223308 7223364 . - . ID=Hsa-Mir-324_pre;Alias=MI0000813 chr17 . miRNA 7223308 7223331 . - . ID=Hsa-Mir-324_5p;Alias=MIMAT0000761 chr17 . miRNA 7223343 7223365 . - . ID=Hsa-Mir-324_3p;Alias=MIMAT0000762 chr17 . pre_miRNA 12081909 12081986 . + . ID=Hsa-Mir-744_pre;Alias=MI0005559 chr17 . miRNA 12081909 12081931 . + . ID=Hsa-Mir-744_5p;Alias=MIMAT0004945 chr17 . miRNA 12081966 12081987 . + . ID=Hsa-Mir-744_3p;Alias=MIMAT0004946 chr17 . pre_miRNA 15251634 15251687 . - . ID=Hsa-Mir-4731_pre;Alias=MI0017368 chr17 . miRNA 15251634 15251656 . - . ID=Hsa-Mir-4731_5p;Alias=MIMAT0019853 chr17 . miRNA 15251666 15251688 . - . ID=Hsa-Mir-4731_3p;Alias=MIMAT0019854 chr17 . pre_miRNA 17813858 17813916 . - . ID=Hsa-Mir-33-P2_pre;Alias=MI0003646 chr17 . miRNA 17813858 17813879 . - . ID=Hsa-Mir-33-P2_5p;Alias=MIMAT0003301 chr17 . miRNA 17813896 17813917 . - . ID=Hsa-Mir-33-P2_3p;Alias=MIMAT0004811 chr17 . pre_miRNA 19344513 19344568 . - . ID=Hsa-Mir-1180_pre;Alias=MI0006273 chr17 . miRNA 19344513 19344534 . - . ID=Hsa-Mir-1180_5p;Alias=MIMAT0026735 chr17 . miRNA 19344547 19344569 . - . ID=Hsa-Mir-1180_3p;Alias=MIMAT0005825 chr17 . pre_miRNA 28861547 28861604 . - . ID=Hsa-Mir-144_pre;Alias=MI0000460 chr17 . miRNA 28861547 28861569 . - . ID=Hsa-Mir-144_5p;Alias=MIMAT0004600 chr17 . miRNA 28861584 28861605 . - . ID=Hsa-Mir-144_3p;Alias=MIMAT0000436 chr17 . pre_miRNA 30117095 30117153 . + . ID=Hsa-Mir-423_pre;Alias=MI0001445 chr17 . miRNA 30117095 30117118 . + . ID=Hsa-Mir-423_5p;Alias=MIMAT0004748 chr17 . miRNA 30117131 30117154 . + . ID=Hsa-Mir-423_3p;Alias=MIMAT0001340 chr17 . pre_miRNA 31560016 31560071 . + . ID=Hsa-Mir-193-P1a_pre;Alias=MI0000487 chr17 . miRNA 31560016 31560038 . + . ID=Hsa-Mir-193-P1a_5p;Alias=MIMAT0004614 chr17 . miRNA 31560050 31560072 . + . ID=Hsa-Mir-193-P1a_3p;Alias=MIMAT0000459 chr17 . pre_miRNA 31575439 31575499 . + . ID=Hsa-Mir-193-P2a_pre;Alias=MI0000769 chr17 . miRNA 31575439 31575462 . + . ID=Hsa-Mir-193-P2a_5p;Alias=MIMAT0022833 chr17 . miRNA 31575478 31575500 . + . ID=Hsa-Mir-193-P2a_3p;Alias=MIMAT0022834 chr17 . pre_miRNA 42514208 42514289 . + . ID=Hsa-Mir-5010_pre;Alias=MI0017878 chr17 . miRNA 42514208 42514230 . + . ID=Hsa-Mir-5010_5p;Alias=MIMAT0021043 chr17 . miRNA 42514267 42514290 . + . ID=Hsa-Mir-5010_3p;Alias=MIMAT0021044 chr17 . pre_miRNA 48037174 48037232 . - . ID=Hsa-Mir-148-P3_pre;Alias=MI0000462 chr17 . miRNA 48037174 48037197 . - . ID=Hsa-Mir-148-P3_5p;Alias=MIMAT0026479 chr17 . miRNA 48037212 48037233 . - . ID=Hsa-Mir-148-P3_3p;Alias=MIMAT0000438 chr17 . pre_miRNA 48579864 48579926 . - . ID=Hsa-Mir-10-P1a_pre;Alias=MI0000266 chr17 . miRNA 48579864 48579887 . - . ID=Hsa-Mir-10-P1a_5p;Alias=MIMAT0000253 chr17 . miRNA 48579905 48579927 . - . ID=Hsa-Mir-10-P1a_3p;Alias=MIMAT0004555 chr17 . pre_miRNA 48632494 48632553 . - . ID=Hsa-Mir-196-P1_pre;Alias=MI0000238 chr17 . miRNA 48632494 48632516 . - . ID=Hsa-Mir-196-P1_5p;Alias=MIMAT0000226 chr17 . miRNA 48632532 48632554 . - . ID=Hsa-Mir-196-P1_3p chr17 . pre_miRNA 56891282 56891341 . - . ID=Hsa-Mir-3614_pre;Alias=MI0016004 chr17 . miRNA 56891282 56891304 . - . ID=Hsa-Mir-3614_5p;Alias=MIMAT0017992 chr17 . miRNA 56891320 56891342 . - . ID=Hsa-Mir-3614_3p;Alias=MIMAT0017993 chr17 . pre_miRNA 58331245 58331303 . - . ID=Hsa-Mir-142-P1_pre;Alias=MI0000458 chr17 . miRNA 58331245 58331266 . - . ID=Hsa-Mir-142-P1_5p;Alias=MIMAT0000433 chr17 . miRNA 58331283 58331304 . - . ID=Hsa-Mir-142-P1_3p;Alias=MIMAT0000434 chr17 . pre_miRNA 59137785 59137849 . - . ID=Hsa-Mir-130-P4a_pre;Alias=MI0003820 chr17 . miRNA 59137785 59137808 . - . ID=Hsa-Mir-130-P4a_5p;Alias=MIMAT0003884 chr17 . miRNA 59137825 59137850 . - . ID=Hsa-Mir-130-P4a_3p;Alias=MIMAT0003885 chr17 . pre_miRNA 59151147 59151208 . - . ID=Hsa-Mir-130-P2a_pre;Alias=MI0000745 chr17 . miRNA 59151147 59151169 . - . ID=Hsa-Mir-130-P2a_5p;Alias=MIMAT0022696 chr17 . miRNA 59151184 59151209 . - . ID=Hsa-Mir-130-P2a_3p;Alias=MIMAT0000688 chr17 . pre_miRNA 59841273 59841332 . + . ID=Hsa-Mir-21_pre;Alias=MI0000077 chr17 . miRNA 59841273 59841297 . + . ID=Hsa-Mir-21_5p;Alias=MIMAT0000076 chr17 . miRNA 59841311 59841333 . + . ID=Hsa-Mir-21_3p;Alias=MIMAT0004494 chr17 . pre_miRNA 69099570 69099625 . - . ID=Hsa-Mir-4524_pre;Alias=MI0016891 chr17 . miRNA 69099570 69099592 . - . ID=Hsa-Mir-4524_5p;Alias=MIMAT0019062 chr17 . miRNA 69099604 69099626 . - . ID=Hsa-Mir-4524_3p;Alias=MIMAT0019063 chr17 . pre_miRNA 79707183 79707240 . - . ID=Hsa-Mir-4739_pre;Alias=MI0017377 chr17 . miRNA 79707183 79707208 . - . ID=Hsa-Mir-4739_5p;Alias=MIMAT0019868 chr17 . miRNA 79707219 79707241 . - . ID=Hsa-Mir-4739_3p chr17 . pre_miRNA 81125886 81125944 . - . ID=Hsa-Mir-338-P1_pre;Alias=MI0000814 chr17 . miRNA 81125886 81125907 . - . ID=Hsa-Mir-338-P1_5p;Alias=MIMAT0004701 chr17 . miRNA 81125922 81125945 . - . ID=Hsa-Mir-338-P1_3p;Alias=MIMAT0000763 chr17 . pre_miRNA 81451116 81451174 . - . ID=Hsa-Mir-3186_pre;Alias=MI0014229 chr17 . miRNA 81451116 81451138 . - . ID=Hsa-Mir-3186_5p;Alias=MIMAT0015067 chr17 . miRNA 81451154 81451175 . - . ID=Hsa-Mir-3186_3p;Alias=MIMAT0015068 chr18 . pre_miRNA 21825711 21825770 . - . ID=Hsa-Mir-133-P2_pre;Alias=MI0000450 chr18 . miRNA 21825711 21825734 . - . ID=Hsa-Mir-133-P2_5p;Alias=MIMAT0026478 chr18 . miRNA 21825748 21825771 . - . ID=Hsa-Mir-133-P2_3p;Alias=MIMAT0000427 chr18 . pre_miRNA 21829015 21829075 . - . ID=Hsa-Mir-1-P2_pre;Alias=MI0000437 chr18 . miRNA 21829015 21829038 . - . ID=Hsa-Mir-1-P2_5p chr18 . miRNA 21829054 21829076 . - . ID=Hsa-Mir-1-P2_3p;Alias=MIMAT0000416 chr18 . pre_miRNA 35904835 35904892 . - . ID=Hsa-Mir-187_pre;Alias=MI0000274 chr18 . miRNA 35904835 35904857 . - . ID=Hsa-Mir-187_5p;Alias=MIMAT0004561 chr18 . miRNA 35904871 35904893 . - . ID=Hsa-Mir-187_3p;Alias=MIMAT0000262 chr18 . pre_miRNA 58451088 58451145 . + . ID=Hsa-Mir-122_pre;Alias=MI0000442 chr18 . miRNA 58451088 58451110 . + . ID=Hsa-Mir-122_5p;Alias=MIMAT0000421 chr18 . miRNA 58451124 58451146 . + . ID=Hsa-Mir-122_3p;Alias=MIMAT0004590 chr19 . pre_miRNA 813590 813649 . + . ID=Hsa-Mir-3187_pre;Alias=MI0014231 chr19 . miRNA 813590 813613 . + . ID=Hsa-Mir-3187_5p;Alias=MIMAT0019216 chr19 . miRNA 813627 813650 . + . ID=Hsa-Mir-3187_3p;Alias=MIMAT0015069 chr19 . pre_miRNA 4770700 4770759 . + . ID=Hsa-Mir-7-P3_pre;Alias=MI0000265 chr19 . miRNA 4770700 4770724 . + . ID=Hsa-Mir-7-P3_5p;Alias=MIMAT0000252 chr19 . miRNA 4770738 4770760 . + . ID=Hsa-Mir-7-P3_3p chr19 . pre_miRNA 6416434 6416489 . - . ID=Hsa-Mir-3940_pre;Alias=MI0016597 chr19 . miRNA 6416434 6416454 . - . ID=Hsa-Mir-3940_5p;Alias=MIMAT0019229 chr19 . miRNA 6416468 6416490 . - . ID=Hsa-Mir-3940_3p;Alias=MIMAT0018356 chr19 . pre_miRNA 10817429 10817491 . - . ID=Hsa-Mir-199-P1_pre;Alias=MI0000242 chr19 . miRNA 10817429 10817452 . - . ID=Hsa-Mir-199-P1_5p;Alias=MIMAT0000231 chr19 . miRNA 10817470 10817492 . - . ID=Hsa-Mir-199-P1_3p;Alias=MIMAT0000232 chr19 . pre_miRNA 13836289 13836348 . - . ID=Hsa-Mir-24-P1_pre;Alias=MI0000081 chr19 . miRNA 13836289 13836313 . - . ID=Hsa-Mir-24-P1_5p;Alias=MIMAT0004497 chr19 . miRNA 13836327 13836349 . - . ID=Hsa-Mir-24-P1_3p;Alias=MIMAT0000080 chr19 . pre_miRNA 13836447 13836508 . - . ID=Hsa-Mir-27-P1_pre;Alias=MI0000085 chr19 . miRNA 13836447 13836469 . - . ID=Hsa-Mir-27-P1_5p;Alias=MIMAT0004501 chr19 . miRNA 13836488 13836509 . - . ID=Hsa-Mir-27-P1_3p;Alias=MIMAT0000084 chr19 . pre_miRNA 13836593 13836651 . - . ID=Hsa-Mir-23-P1_pre;Alias=MI0000079 chr19 . miRNA 13836593 13836615 . - . ID=Hsa-Mir-23-P1_5p;Alias=MIMAT0004496 chr19 . miRNA 13836629 13836652 . - . ID=Hsa-Mir-23-P1_3p;Alias=MIMAT0000078 chr19 . pre_miRNA 13874725 13874785 . + . ID=Hsa-Mir-181-P1c_pre;Alias=MI0000271 chr19 . miRNA 13874725 13874749 . + . ID=Hsa-Mir-181-P1c_5p;Alias=MIMAT0000258 chr19 . miRNA 13874764 13874786 . + . ID=Hsa-Mir-181-P1c_3p;Alias=MIMAT0004559 chr19 . pre_miRNA 13874910 13874973 . + . ID=Hsa-Mir-181-P2c_pre;Alias=MI0003139 chr19 . miRNA 13874910 13874934 . + . ID=Hsa-Mir-181-P2c_5p;Alias=MIMAT0002821 chr19 . miRNA 13874952 13874974 . + . ID=Hsa-Mir-181-P2c_3p;Alias=MIMAT0026608 chr19 . pre_miRNA 20399284 20399342 . - . ID=Hsa-Mir-1270_pre;Alias=MI0006407 chr19 . miRNA 20399284 20399307 . - . ID=Hsa-Mir-1270_5p;Alias=MIMAT0005924 chr19 . miRNA 20399321 20399343 . - . ID=Hsa-Mir-1270_3p chr19 . pre_miRNA 40282557 40282626 . - . ID=Hsa-Mir-641_pre;Alias=MI0003656 chr19 . miRNA 40282557 40282579 . - . ID=Hsa-Mir-641_5p;Alias=MIMAT0003311 chr19 . miRNA 40282607 40282627 . - . ID=Hsa-Mir-641_3p chr19 . pre_miRNA 45639007 45639070 . - . ID=Hsa-Mir-330_pre;Alias=MI0000803 chr19 . miRNA 45639007 45639030 . - . ID=Hsa-Mir-330_5p;Alias=MIMAT0004693 chr19 . miRNA 45639047 45639071 . - . ID=Hsa-Mir-330_3p;Alias=MIMAT0000751 chr19 . pre_miRNA 45674943 45674999 . + . ID=Hsa-Mir-642_pre;Alias=MI0003657 chr19 . miRNA 45674943 45674965 . + . ID=Hsa-Mir-642_5p;Alias=MIMAT0003312 chr19 . miRNA 45674978 45675000 . + . ID=Hsa-Mir-642_3p;Alias=MIMAT0020924 chr19 . pre_miRNA 46018961 46019022 . + . ID=Hsa-Mir-769_pre;Alias=MI0003834 chr19 . miRNA 46018961 46018983 . + . ID=Hsa-Mir-769_5p;Alias=MIMAT0003886 chr19 . miRNA 46019000 46019023 . + . ID=Hsa-Mir-769_3p;Alias=MIMAT0003887 chr19 . pre_miRNA 49500798 49500853 . - . ID=Hsa-Mir-150_pre;Alias=MI0000479 chr19 . miRNA 49500798 49500820 . - . ID=Hsa-Mir-150_5p;Alias=MIMAT0000451 chr19 . miRNA 49500833 49500854 . - . ID=Hsa-Mir-150_3p;Alias=MIMAT0004610 chr19 . pre_miRNA 51692618 51692677 . + . ID=Hsa-Mir-10-P2c_pre;Alias=MI0000746 chr19 . miRNA 51692618 51692640 . + . ID=Hsa-Mir-10-P2c_5p;Alias=MIMAT0000689 chr19 . miRNA 51692656 51692678 . + . ID=Hsa-Mir-10-P2c_3p;Alias=MIMAT0004678 chr19 . pre_miRNA 51692793 51692859 . + . ID=Hsa-Let-7-P2_pre;Alias=MI0000066 chr19 . miRNA 51692793 51692815 . + . ID=Hsa-Let-7-P2_5p;Alias=MIMAT0000066 chr19 . miRNA 51692838 51692860 . + . ID=Hsa-Let-7-P2_3p;Alias=MIMAT0004485 chr19 . pre_miRNA 51693268 51693327 . + . ID=Hsa-Mir-10-P3a_pre;Alias=MI0000469 chr19 . miRNA 51693268 51693292 . + . ID=Hsa-Mir-10-P3a_5p;Alias=MIMAT0000443 chr19 . miRNA 51693306 51693328 . + . ID=Hsa-Mir-10-P3a_3p;Alias=MIMAT0004602 chr19 . pre_miRNA 53666693 53666750 . + . ID=Hsa-Mir-430-P8a_pre;Alias=MI0003140 chr19 . miRNA 53666693 53666715 . + . ID=Hsa-Mir-430-P8a_5p;Alias=MIMAT0002822 chr19 . miRNA 53666729 53666751 . + . ID=Hsa-Mir-430-P8a_3p;Alias=MIMAT0002823 chr19 . pre_miRNA 53669177 53669234 . + . ID=Hsa-Mir-430-P8b_pre;Alias=MI0003141 chr19 . miRNA 53669177 53669199 . + . ID=Hsa-Mir-430-P8b_5p;Alias=MIMAT0002822 chr19 . miRNA 53669213 53669235 . + . ID=Hsa-Mir-430-P8b_3p;Alias=MIMAT0002823 chr19 . pre_miRNA 53671978 53672033 . + . ID=Hsa-Mir-1323_pre;Alias=MI0003786 chr19 . miRNA 53671978 53672000 . + . ID=Hsa-Mir-1323_5p;Alias=MIMAT0005795 chr19 . miRNA 53672013 53672034 . + . ID=Hsa-Mir-1323_3p chr19 . pre_miRNA 53674230 53674289 . + . ID=Hsa-Mir-498_pre;Alias=MI0003142 chr19 . miRNA 53674230 53674252 . + . ID=Hsa-Mir-498_5p;Alias=MIMAT0002824 chr19 . miRNA 53674267 53674290 . + . ID=Hsa-Mir-498_3p chr19 . pre_miRNA 53675725 53675785 . + . ID=Hsa-Mir-430-P35_pre;Alias=MI0003143 chr19 . miRNA 53675725 53675747 . + . ID=Hsa-Mir-430-P35_5p chr19 . miRNA 53675764 53675786 . + . ID=Hsa-Mir-430-P35_3p;Alias=MIMAT0002825 chr19 . pre_miRNA 53679016 53679074 . + . ID=Hsa-Mir-430-P9_pre;Alias=MI0003144 chr19 . miRNA 53679016 53679040 . + . ID=Hsa-Mir-430-P9_5p;Alias=MIMAT0002826 chr19 . miRNA 53679053 53679075 . + . ID=Hsa-Mir-430-P9_3p;Alias=MIMAT0002827 chr19 . pre_miRNA 53679953 53680011 . + . ID=Hsa-Mir-430-P30_pre;Alias=MI0003145 chr19 . miRNA 53679953 53679975 . + . ID=Hsa-Mir-430-P30_5p;Alias=MIMAT0002828 chr19 . miRNA 53679989 53680012 . + . ID=Hsa-Mir-430-P30_3p;Alias=MIMAT0002829 chr19 . pre_miRNA 53682173 53682233 . + . ID=Hsa-Mir-430-P36_pre;Alias=MI0003146 chr19 . miRNA 53682173 53682195 . + . ID=Hsa-Mir-430-P36_5p;Alias=MIMAT0026609 chr19 . miRNA 53682212 53682234 . + . ID=Hsa-Mir-430-P36_3p;Alias=MIMAT0002830 chr19 . pre_miRNA 53685022 53685080 . + . ID=Hsa-Mir-430-P10_pre;Alias=MI0003147 chr19 . miRNA 53685022 53685046 . + . ID=Hsa-Mir-430-P10_5p;Alias=MIMAT0002826 chr19 . miRNA 53685059 53685081 . + . ID=Hsa-Mir-430-P10_3p;Alias=MIMAT0002827 chr19 . pre_miRNA 53686484 53686543 . + . ID=Hsa-Mir-430-P28_pre;Alias=MI0003148 chr19 . miRNA 53686484 53686506 . + . ID=Hsa-Mir-430-P28_5p;Alias=MIMAT0002831 chr19 . miRNA 53686522 53686544 . + . ID=Hsa-Mir-430-P28_3p;Alias=MIMAT0002832 chr19 . pre_miRNA 53688495 53688553 . + . ID=Hsa-Mir-430-P49_pre;Alias=MI0003832 chr19 . miRNA 53688495 53688516 . + . ID=Hsa-Mir-430-P49_5p;Alias=MIMAT0005799 chr19 . miRNA 53688533 53688554 . + . ID=Hsa-Mir-430-P49_3p chr19 . pre_miRNA 53690895 53690953 . + . ID=Hsa-Mir-430-P31_pre;Alias=MI0003149 chr19 . miRNA 53690895 53690916 . + . ID=Hsa-Mir-430-P31_5p;Alias=MIMAT0002833 chr19 . miRNA 53690933 53690954 . + . ID=Hsa-Mir-430-P31_3p;Alias=MIMAT0002834 chr19 . pre_miRNA 53694406 53694464 . + . ID=Hsa-Mir-430-P47_pre;Alias=MI0003150 chr19 . miRNA 53694406 53694428 . + . ID=Hsa-Mir-430-P47_5p;Alias=MIMAT0002835 chr19 . miRNA 53694443 53694465 . + . ID=Hsa-Mir-430-P47_3p;Alias=MIMAT0002836 chr19 . pre_miRNA 53695225 53695284 . + . ID=Hsa-Mir-430-P27_pre;Alias=MI0003151 chr19 . miRNA 53695225 53695247 . + . ID=Hsa-Mir-430-P27_5p;Alias=MIMAT0005454 chr19 . miRNA 53695263 53695285 . + . ID=Hsa-Mir-430-P27_3p;Alias=MIMAT0002837 chr19 . pre_miRNA 53697547 53697605 . + . ID=Hsa-Mir-430-P44_pre;Alias=MI0003152 chr19 . miRNA 53697547 53697569 . + . ID=Hsa-Mir-430-P44_5p;Alias=MIMAT0002838 chr19 . miRNA 53697584 53697606 . + . ID=Hsa-Mir-430-P44_3p;Alias=MIMAT0002839 chr19 . pre_miRNA 53698400 53698458 . + . ID=Hsa-Mir-430-P42_pre;Alias=MI0003153 chr19 . miRNA 53698400 53698422 . + . ID=Hsa-Mir-430-P42_5p;Alias=MIMAT0005449 chr19 . miRNA 53698437 53698459 . + . ID=Hsa-Mir-430-P42_3p;Alias=MIMAT0002840 chr19 . pre_miRNA 53700030 53700088 . + . ID=Hsa-Mir-430-P24_pre;Alias=MI0003154 chr19 . miRNA 53700030 53700052 . + . ID=Hsa-Mir-430-P24_5p;Alias=MIMAT0002841 chr19 . miRNA 53700067 53700089 . + . ID=Hsa-Mir-430-P24_3p;Alias=MIMAT0002842 chr19 . pre_miRNA 53701228 53701288 . + . ID=Hsa-Mir-430-P32_pre;Alias=MI0003155 chr19 . miRNA 53701228 53701250 . + . ID=Hsa-Mir-430-P32_5p chr19 . miRNA 53701267 53701289 . + . ID=Hsa-Mir-430-P32_3p;Alias=MIMAT0002843 chr19 . pre_miRNA 53702750 53702808 . + . ID=Hsa-Mir-430-P20_pre;Alias=MI0003156 chr19 . miRNA 53702750 53702773 . + . ID=Hsa-Mir-430-P20_5p chr19 . miRNA 53702787 53702809 . + . ID=Hsa-Mir-430-P20_3p;Alias=MIMAT0002844 chr19 . pre_miRNA 53706266 53706324 . + . ID=Hsa-Mir-430-P45_pre;Alias=MI0003157 chr19 . miRNA 53706266 53706288 . + . ID=Hsa-Mir-430-P45_5p;Alias=MIMAT0002845 chr19 . miRNA 53706303 53706325 . + . ID=Hsa-Mir-430-P45_3p chr19 . pre_miRNA 53707468 53707527 . + . ID=Hsa-Mir-430-P33_pre;Alias=MI0003158 chr19 . miRNA 53707468 53707489 . + . ID=Hsa-Mir-430-P33_5p;Alias=MIMAT0005455 chr19 . miRNA 53707506 53707528 . + . ID=Hsa-Mir-430-P33_3p;Alias=MIMAT0002846 chr19 . pre_miRNA 53708759 53708817 . + . ID=Hsa-Mir-430-P21_pre;Alias=MI0003159 chr19 . miRNA 53708759 53708781 . + . ID=Hsa-Mir-430-P21_5p;Alias=MIMAT0002847 chr19 . miRNA 53708796 53708818 . + . ID=Hsa-Mir-430-P21_3p;Alias=MIMAT0002848 chr19 . pre_miRNA 53711017 53711075 . + . ID=Hsa-Mir-430-P43_pre;Alias=MI0003160 chr19 . miRNA 53711017 53711039 . + . ID=Hsa-Mir-430-P43_5p;Alias=MIMAT0002849 chr19 . miRNA 53711054 53711076 . + . ID=Hsa-Mir-430-P43_3p;Alias=MIMAT0002850 chr19 . pre_miRNA 53712282 53712342 . + . ID=Hsa-Mir-430-P15_pre;Alias=MI0003161 chr19 . miRNA 53712282 53712304 . + . ID=Hsa-Mir-430-P15_5p;Alias=MIMAT0002851 chr19 . miRNA 53712321 53712343 . + . ID=Hsa-Mir-430-P15_3p;Alias=MIMAT0002852 chr19 . pre_miRNA 53713361 53713422 . + . ID=Hsa-Mir-430-P29_pre;Alias=MI0003162 chr19 . miRNA 53713361 53713385 . + . ID=Hsa-Mir-430-P29_5p;Alias=MIMAT0026610 chr19 . miRNA 53713400 53713423 . + . ID=Hsa-Mir-430-P29_3p;Alias=MIMAT0002853 chr19 . pre_miRNA 53716608 53716668 . + . ID=Hsa-Mir-430-P40_pre;Alias=MI0003163 chr19 . miRNA 53716608 53716630 . + . ID=Hsa-Mir-430-P40_5p chr19 . miRNA 53716647 53716669 . + . ID=Hsa-Mir-430-P40_3p;Alias=MIMAT0002854 chr19 . pre_miRNA 53720111 53720169 . + . ID=Hsa-Mir-430-P34_pre;Alias=MI0003164 chr19 . miRNA 53720111 53720132 . + . ID=Hsa-Mir-430-P34_5p;Alias=MIMAT0002855 chr19 . miRNA 53720149 53720170 . + . ID=Hsa-Mir-430-P34_3p;Alias=MIMAT0002856 chr19 . pre_miRNA 53721081 53721139 . + . ID=Hsa-Mir-430-P16_pre;Alias=MI0003165 chr19 . miRNA 53721081 53721103 . + . ID=Hsa-Mir-430-P16_5p;Alias=MIMAT0002851 chr19 . miRNA 53721118 53721140 . + . ID=Hsa-Mir-430-P16_3p;Alias=MIMAT0002857 chr19 . pre_miRNA 53722182 53722241 . + . ID=Hsa-Mir-430-P37_pre;Alias=MI0003166 chr19 . miRNA 53722182 53722204 . + . ID=Hsa-Mir-430-P37_5p;Alias=MIMAT0026611 chr19 . miRNA 53722221 53722242 . + . ID=Hsa-Mir-430-P37_3p;Alias=MIMAT0002858 chr19 . pre_miRNA 53725457 53725514 . + . ID=Hsa-Mir-430-P14_pre;Alias=MI0003167 chr19 . miRNA 53725457 53725481 . + . ID=Hsa-Mir-430-P14_5p;Alias=MIMAT0002859 chr19 . miRNA 53725493 53725515 . + . ID=Hsa-Mir-430-P14_3p;Alias=MIMAT0002860 chr19 . pre_miRNA 53726928 53726982 . + . ID=Hsa-Mir-430-P46_pre;Alias=MI0003168 chr19 . miRNA 53726928 53726950 . + . ID=Hsa-Mir-430-P46_5p;Alias=MIMAT0002845 chr19 . miRNA 53726961 53726983 . + . ID=Hsa-Mir-430-P46_3p chr19 . pre_miRNA 53729853 53729911 . + . ID=Hsa-Mir-430-P23_pre;Alias=MI0003169 chr19 . miRNA 53729853 53729875 . + . ID=Hsa-Mir-430-P23_5p;Alias=MIMAT0005450 chr19 . miRNA 53729890 53729912 . + . ID=Hsa-Mir-430-P23_3p;Alias=MIMAT0002861 chr19 . pre_miRNA 53731019 53731078 . + . ID=Hsa-Mir-430-P18_pre;Alias=MI0003170 chr19 . miRNA 53731019 53731041 . + . ID=Hsa-Mir-430-P18_5p;Alias=MIMAT0005457 chr19 . miRNA 53731056 53731079 . + . ID=Hsa-Mir-430-P18_3p;Alias=MIMAT0002863 chr19 . pre_miRNA 53734892 53734950 . + . ID=Hsa-Mir-430-P22_pre;Alias=MI0003171 chr19 . miRNA 53734892 53734914 . + . ID=Hsa-Mir-430-P22_5p;Alias=MIMAT0005456 chr19 . miRNA 53734929 53734951 . + . ID=Hsa-Mir-430-P22_3p;Alias=MIMAT0002864 chr19 . pre_miRNA 53736860 53736922 . + . ID=Hsa-Mir-430-P13_pre;Alias=MI0003172 chr19 . miRNA 53736860 53736884 . + . ID=Hsa-Mir-430-P13_5p;Alias=MIMAT0002859 chr19 . miRNA 53736901 53736923 . + . ID=Hsa-Mir-430-P13_3p;Alias=MIMAT0002860 chr19 . pre_miRNA 53739348 53739407 . + . ID=Hsa-Mir-430-P19_pre;Alias=MI0003173 chr19 . miRNA 53739348 53739370 . + . ID=Hsa-Mir-430-P19_5p;Alias=MIMAT0005457 chr19 . miRNA 53739385 53739408 . + . ID=Hsa-Mir-430-P19_3p;Alias=MIMAT0002863 chr19 . pre_miRNA 53741332 53741390 . + . ID=Hsa-Mir-430-P17_pre;Alias=MI0003174 chr19 . miRNA 53741332 53741354 . + . ID=Hsa-Mir-430-P17_5p;Alias=MIMAT0002851 chr19 . miRNA 53741369 53741391 . + . ID=Hsa-Mir-430-P17_3p;Alias=MIMAT0002866 chr19 . pre_miRNA 53742528 53742587 . + . ID=Hsa-Mir-430-P38_pre;Alias=MI0003175 chr19 . miRNA 53742528 53742550 . + . ID=Hsa-Mir-430-P38_5p chr19 . miRNA 53742567 53742588 . + . ID=Hsa-Mir-430-P38_3p;Alias=MIMAT0002867 chr19 . pre_miRNA 53748650 53748710 . + . ID=Hsa-Mir-430-P39_pre;Alias=MI0003176 chr19 . miRNA 53748650 53748672 . + . ID=Hsa-Mir-430-P39_5p chr19 . miRNA 53748689 53748711 . + . ID=Hsa-Mir-430-P39_3p;Alias=MIMAT0002854 chr19 . pre_miRNA 53751226 53751285 . + . ID=Hsa-Mir-430-P41_pre;Alias=MI0003177 chr19 . miRNA 53751226 53751248 . + . ID=Hsa-Mir-430-P41_5p;Alias=MIMAT0005451 chr19 . miRNA 53751264 53751286 . + . ID=Hsa-Mir-430-P41_3p;Alias=MIMAT0002868 chr19 . pre_miRNA 53752410 53752470 . + . ID=Hsa-Mir-430-P25_pre;Alias=MI0003178 chr19 . miRNA 53752410 53752432 . + . ID=Hsa-Mir-430-P25_5p;Alias=MIMAT0005452 chr19 . miRNA 53752449 53752471 . + . ID=Hsa-Mir-430-P25_3p;Alias=MIMAT0002869 chr19 . pre_miRNA 53754031 53754089 . + . ID=Hsa-Mir-430-P48_pre;Alias=MI0003179 chr19 . miRNA 53754031 53754052 . + . ID=Hsa-Mir-430-P48_5p;Alias=MIMAT0002862 chr19 . miRNA 53754069 53754090 . + . ID=Hsa-Mir-430-P48_3p chr19 . pre_miRNA 53756756 53756818 . + . ID=Hsa-Mir-430-P11_pre;Alias=MI0003180 chr19 . miRNA 53756756 53756780 . + . ID=Hsa-Mir-430-P11_5p;Alias=MIMAT0004770 chr19 . miRNA 53756797 53756819 . + . ID=Hsa-Mir-430-P11_3p;Alias=MIMAT00067

lpantano commented 7 years ago

Thanks for all the ideas.

I am happy to try the GFF3 format. I will create a new document inside this repo to describe better each column to get to a consensus. I think this is a very good example of community effort that will lead to a usable concept in the future.

I'll start with a draft, so you can continue with the ideas posted here! I'll ping you when It's done tomorrow.

Thanks!

haebhardt commented 7 years ago

The new format looks good. I noted two things: column 9 is getting really full now. Is there space to add additional columns and subdivide the information contained in col 9 across multiple columns which would be easier to parse?

Second comment: the isomiRs are not really represented thus far in https://github.com/miRTop/incubator/blob/master/format/definition.md There are lots of isomiRs, e.g. additional nts (not included in genome), truncations of original miR sequence, nts edtiting. Is there space to add a column like that?

keilbeck commented 7 years ago

GFF3 is a 9 column format. https://github.com/The-Sequence-Ontology/Specifications/blob/master/gff3.md

Column 9: "attributes" A list of feature attributes in the format tag=value. Multiple tag=value pairs are separated by semicolons. URL escaping rules are used for tags or values containing the following characters: ",=;". Spaces are allowed in this field, but tabs must be replaced with the %09 URL escape. Attribute values do not need to be and should not be quoted. The quotes should be included as part of the value by parsers and not stripped.

lpantano commented 7 years ago

Thanks for the thoughts.

I think it is ok the attributes in column 9, part of the project would help with a python tool to parse the file to get any kind of information from it easily. So the idea is that people use the API/tool to ‘query’ the file.

For isomiRs, yes, sure they are super important. We decided to use type column to tag the sequence as isomiR or ref_miRNA. And the idea is to use the ‘variant’ attribute to tag the sequence in a way is containing any modification detected by the analysis. So it should be easy to parse by any kind of mutation. At this moment, we still need to agree on how will TAG that, but the idea was to first agree on number of attributes, although maybe we can open a new discussion for that specifically because it will need a lot of inputs for everybody.

Thanks again!

On Jun 23, 2017, at 10:08 AM, H. Alexander Ebhardt notifications@github.com wrote:

The new format looks good. I noted two things: column 9 is getting really full now. Is there space to add additional columns and subdivide the information contained in col 9 across multiple columns which would be easier to parse?

Second comment: the isomiRs are not really represented thus far in https://github.com/miRTop/incubator/blob/master/format/definition.md https://github.com/miRTop/incubator/blob/master/format/definition.md There are lots of isomiRs, e.g. additional nts (not included in genome), truncations of original miR sequence, nts edtiting. Is there space to add a column like that?

— You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub https://github.com/miRTop/incubator/issues/10#issuecomment-310675146, or mute the thread https://github.com/notifications/unsubscribe-auth/ABi_HCTvCr4qPZr-yfqSlcS1VK8U0tArks5sG8bugaJpZM4NP7RD.

haebhardt commented 7 years ago

The 'type' column distinguishing isomiR / ref_miR sounds reasonable.

I am happy to contribute my input for isomiR attributes.