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We want Mark to create PomBase pages for non-gene features such as centromeric repeats, LTRs, etc., so they will need systematic IDs. We also need to add systematic IDs to transposons.
We propose to …
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In this RT item...
accessing LTRs, transposons
https://rt.sanger.ac.uk/Ticket/Display.html?id=269629
and an item for viewing contigs in artemis
Original comment by: ValWood
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When I search on "DNA recombination" and download gene products in pombe I get 103 gene products. For PomBase I get 117.
I compared the lists and the following were not in both lists:
However, the o…
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There are 22 transposon features in the gff file:
but I think there are only 14 transposons (maybe more with pseudo, but not this many)
III . repeat_region 254442 256307 . - …
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Is it possible to get .vcf format files for all the mutations? Or is there an easy way to convert either .gd or .html files to .vcf files? Thanks!
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I leave the transposon out of the pombe/cerevisiae ortholog table. and they appear to be left out of the human ortholog table too, except for this one?
Tf2-10 (SPBC1E8.04)
(I'm not sure how the othe…
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**Reported by srengel on 2008-01-10 21:10 UTC**
hi,
would it be possible for 'plasmid' to be pulled out from under 'reagent', so that it is simply under 'region' at the same level as, and as a sibling…
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viable vegetative cells with circular(ized) chromosomes
Original comment by: Antonialock
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- remove the BDGP version, use the version here: https://raw.githubusercontent.com/cbergman/transposons/master/misc/D_mel_transposon_sequence_set.fa
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It seems that the last record is not formatted like the others: it starts with a line starting with "LOCUS" instead of "ID".
(As a side note, Biopython's SeqIO.parse() seems to ignore the "FT" lines.…