GgaINT0022923 @ galGal3
Intron Retention
Gene
ENSGALG00000005811 | COL7A1
Description
NA
Coordinates
chr12:9340369-9340525:+
Coord C1 exon
chr12:9340369-9340413
Coord A exon
chr12:9340414-9340489
Coord C2 exon
chr12:9340490-9340525
Length
76 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
ATGGCTCTGTGTCTTTGCAGGGA
3' ss Score
10.85
Exon sequences
Seq C1 exon
GGGGAGCCTGGAGGAGCTGGGGAGCCTGGAGACCCCGGCGAAGAT
Seq A exon
GTGAGTAGAGGATGTGGAGGGGAGCTGATGGGATCACATCCTTACCCTGTGCCCTGATGGCTCTGTGTCTTTGCAG
Seq C2 exon
GGAGCCAAGGGATCATCCGGAGTCAAGGGGGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005811:ENSGALT00000009331:77
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(27.5=100)
A:
NA
C2:
PF0139113=Collagen=FE(21.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGAGCCTGGAGGAGCTG
R:
TTTTCCCCCTTGACTCCGGAT
Band lengths:
79-155
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]