GgaINT0022858 @ galGal3
Intron Retention
Gene
ENSGALG00000005811 | COL7A1
Description
NA
Coordinates
chr12:9324958-9325319:+
Coord C1 exon
chr12:9324958-9325100
Coord A exon
chr12:9325101-9325189
Coord C2 exon
chr12:9325190-9325319
Length
89 bp
Sequences
Splice sites
5' ss Seq
CATGTCAGT
5' ss Score
2.02
3' ss Seq
GTCCCGGTGCCATTGGGCATGCA
3' ss Score
-5.8
Exon sequences
Seq C1 exon
ACGGCACCGAGAGGACGAGGCGCGTCCCAGGCACGCAGACAGCGCTGGAGCTGGGTGACCTGCGGGAAGGTGTCACCTACCTGGTGCGTGTCTCAGCCCTCGTGGGCAGCCGGGAAGGCAGTGCCGCTGCACTCAGCATCCAT
Seq A exon
GTCAGTAAGTGCACATGGTTAACCCCAGCCCTGGATTGTGGTGATCGCTCGGGGTGTCCCCATGCTGACGTCCCGGTGCCATTGGGCAT
Seq C2 exon
GCAGAGTTCCCGGCGGTGGGCAGTGTCTCGGAGCTGCGGGTGACGGAGGCCGGCCCCAGCCAGCTGCGGGTCACATGGAGGGGGCTGCCGGGCGCCGGGGGGTACCGGCTGACGTGGAGGGCCAGCGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005811:ENSGALT00000009331:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.091
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(51.9=85.4)
A:
NA
C2:
PF0004116=fn3=PU(47.4=84.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGTGCGTGTCTCAGCC
R:
CCTCCACGTCAGCCGGTA
Band lengths:
183-272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]