BtaINT0042304 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019081 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51869249-51869430:+
Coord C1 exon
chr22:51869249-51869293
Coord A exon
chr22:51869294-51869367
Coord C2 exon
chr22:51869368-51869430
Length
74 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
CACCTGCTCTCTCCTCGCAGGGC
3' ss Score
12.47
Exon sequences
Seq C1 exon
GGCCTGAAAGGACAAGCCGGGCCTCCTGGCCCCCCCGGCCTCCCG
Seq A exon
GTGAGTGCCTCCCCACGCCTGTCGTCTAACACCCCGAGTAGCGAAGTGTCCCCTCACCTGCTCTCTCCTCGCAG
Seq C2 exon
GGCAGGATTGGTGCTCCTGGCCCCCAGGGACCTCCTGGAAGTGCTTCTGCGAAGGGCGAGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(23.0=100)
A:
NA
C2:
PF0139113=Collagen=FE(32.8=100),PF0139113=Collagen=PU(7.6=23.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGAAAGGACAAGCCGGG
R:
CCTCTCGCCCTTCGCAGA
Band lengths:
106-180
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]