GgaINT1010137 @ galGal4
Intron Retention
Gene
ENSGALG00000005811 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr12:9072148-9072326:+
Coord C1 exon
chr12:9072148-9072174
Coord A exon
chr12:9072175-9072272
Coord C2 exon
chr12:9072273-9072326
Length
98 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
GCTCAGCCCTCTTTCCATAGGGT
3' ss Score
8.48
Exon sequences
Seq C1 exon
GGGGAGAAGGGTGATCGAGGGGAGAGG
Seq A exon
GTAAGTGACCGTGTTTGCCTGGTACCTCTGCCTCCCAGGGCACTAGAAAGGACTGAGCTATGGGGCTGCCATGCAGGAGCTCAGCCCTCTTTCCATAG
Seq C2 exon
GGTCCCCCCGGATTGGTTGATGGGACGGTGCCTCAAGGGGAGCCAGGCCCCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005811:ENSGALT00000009331:35
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:
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:
GAAGGGTGATCGAGGGGAGAG
R:
GGCCTGGCTCCCCTTGAG
Band lengths:
71-169
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]