BtaINT0042280 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019081 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51888472-51888739:+
Coord C1 exon
chr22:51888472-51888504
Coord A exon
chr22:51888505-51888652
Coord C2 exon
chr22:51888653-51888739
Length
148 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
GCCCCTGCTCTCGGCTCCAGGGC
3' ss Score
9.52
Exon sequences
Seq C1 exon
CCTGTCAGGGCCAGTATATCGCATCTGGATCAC
Seq A exon
GTGAGTAGTTTTCTGGTCTTTTCTGCTCCCGGAGCTTGCCTCGTGCCAGGCCCTGCTGTGCCCATTGCCTGGGTCGTCTTAGCAGGGGCTTGGTGAGGGCGGCCACCAGGCTGACCCCCGGGCCCCGGGCCCCTGCTCTCGGCTCCAG
Seq C2 exon
GGCCTCTCCCGAGTTACGCAGCAGACACCGCTGGCCCGCAGCTCCACCCCGTGCCCGTGCTCCGCGTGTCCCACGCAGAGGAGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:114
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.583 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TGTCAGGGCCAGTATATCGCA
R:
CCTCCTCTGCGTGGGACA
Band lengths:
115-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]