GgaINT0022882 @ galGal4
Intron Retention
Gene
ENSGALG00000005811 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr12:9072865-9073096:+
Coord C1 exon
chr12:9072865-9072909
Coord A exon
chr12:9072910-9073060
Coord C2 exon
chr12:9073061-9073096
Length
151 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TCCTCTGCTTCACTCTGCAGGGA
3' ss Score
10.88
Exon sequences
Seq C1 exon
GGAGAGCGTGGGGCACCAGGCGAGCTGGGAGAGACGGGCCAGAAG
Seq A exon
GTGAGGTGTCCGCTTTGATGGCCTCTGGGGGCCCTGGGGCCCATGTGGCATTGTGCCGCTGGGAGGCTGCTGGGGGTCTTGAGTGGGACCAGAGGCTCACCTGGAGGTGGGAGGGCGGCTGCCTGAGATGCTCCTCTGCTTCACTCTGCAG
Seq C2 exon
GGAGACCGCGGTGCACCTGGCCCCGAGGGTGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005811:ENSGALT00000009331:40
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=PU(12.1=53.3)
A:
NA
C2:
PF0139113=Collagen=FE(16.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]