BtaINT0042285 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019081 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51863933-51864293:+
Coord C1 exon
chr22:51863933-51864076
Coord A exon
chr22:51864077-51864167
Coord C2 exon
chr22:51864168-51864293
Length
91 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGC
5' ss Score
5.97
3' ss Seq
CCTCTGTCTTTAACTCCCAGAGC
3' ss Score
9.29
Exon sequences
Seq C1 exon
GGGTTGAGCGGAGCCTGGTGCTTCCTGGGAGTCAGACGGCCTTTGACTTGGATGACGTCCGGGCTGGGCTCAGCTACACAGTGCGGGTGTCAGCGCGAGTAGGCGGCCGGGAGGGCGCTGCCAGCATCCTCACTGTCCGCCGGG
Seq A exon
GTGAGCGTGGCACGCGAGGGCCGGGGGGACAGCTGCCTGACTCACTCTAGGGTCCTGGTTTTAATCCCTGACCTCTGTCTTTAACTCCCAG
Seq C2 exon
AGCCAGAACCCCCACTGGCCATCCCAGGGCTGCGGGTCATGGCATCGGACGCAACGCGAGTGAGGGTGGCCTGGGGACCAGTTCCCGGAGCCAGCGGATTTCGGATTAGCTGGAGGACAGACAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.163 A=NA C2=0.186
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(51.9=83.7)
A:
NA
C2:
PF0004116=fn3=PU(46.8=86.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTACACAGTGCGGGTGTCAG
R:
CTAATCCGAAATCCGCTGGCT
Band lengths:
180-271
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]