GgaINT0022945 @ galGal4
Intron Retention
Gene
ENSGALG00000005811 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr12:9085487-9085651:+
Coord C1 exon
chr12:9085487-9085535
Coord A exon
chr12:9085536-9085615
Coord C2 exon
chr12:9085616-9085651
Length
80 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGC
5' ss Score
6.64
3' ss Seq
CCACCCCATCTCTCCTGCAGCAT
3' ss Score
9.66
Exon sequences
Seq C1 exon
GAGGAGGAGATCCGCGCCTTCGTCAGGCAGGAGATGAGCCAGCACTGTG
Seq A exon
GTGAGCACCTCACAGCTGCCCTGGGTTTGGGGGCTGCCCCACACAGCCCCTCACTCACCCCCACCCCATCTCTCCTGCAG
Seq C2 exon
CATGCGGAGGGCAGCTCCCACGGCGCTTGGATTCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005811:ENSGALT00000009331:111
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=PD(3.1=11.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGATCCGCGCCTTCGTC
R:
GGGAATCCAAGCGCCGTG
Band lengths:
79-159
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]