DCC uses output from the STAR read mapper to systematically detect back-splice junctions in next-generation sequencing data. DCC applies a series of filters and integrates data across replicate sets to arrive at a precise list of circRNA candidates.
1 631069 631291 RP5-857K21.6 0 + intron-exon transcript,gene,exon 1 631069 631369 RP5-857K21.6 0 + intron-exon transcript,gene,exon
Additionally to the cases with different annotation order in the type2 column, there are others cases:
While the positions of detected CircRNAs are the same between master and develop branch, the annotation itself differs.
Example:
631069 631291 RP5-857K21.6 0 + intron-exon exon,gene,transcript 1 631069 631369 RP5-857K21.6 0 + intron-exon exon,gene,transcript1 631069 631291 RP5-857K21.6 0 + intron-exon transcript,gene,exon 1 631069 631369 RP5-857K21.6 0 + intron-exon transcript,gene,exonAdditionally to the cases with different annotation order in the type2 column, there are others cases:1 10095461 10105744 UBE4B 2 + exon-exon CDS,exon,gene,transcript 1 10117459 10119613 UBE4B 2 + exon-exon CDS,exon,gene,transcriptvs.
1 10095461 10105744 UBE4B 2 + exon-intron gene,transcript 1 10117459 10119613 UBE4B 2 + exon-intron gene,transcriptAnd also cases where the type is different:
1 24514314 24514567 RCAN3 2 + exon-exon CDS,UTR,exon,gene,start_codon,transcript 1 24514314 24531391 RCAN3 2 + exon-exon CDS,UTR,exon,gene,start_codon,transcriptvs.
1 24514314 24514567 RCAN3 2 + exon-intron gene,transcript 1 24514314 24531391 RCAN3 2 + exon-intron gene,transcriptType exon-exon vs. exon-intron.