GgaINT0022921 @ galGal3
Intron Retention
Gene
ENSGALG00000005811 | COL7A1
Description
NA
Coordinates
chr12:9340082-9340264:+
Coord C1 exon
chr12:9340082-9340123
Coord A exon
chr12:9340124-9340219
Coord C2 exon
chr12:9340220-9340264
Length
96 bp
Sequences
Splice sites
5' ss Seq
CCCGTGAGT
5' ss Score
8.4
3' ss Seq
ATACTGCTCTCCCTCCCTAGGGC
3' ss Score
12.3
Exon sequences
Seq C1 exon
GGTGAGCCGGCGCTGCTGGAGGGCGTGCTGCTGGGTGAACCC
Seq A exon
GTGAGTTGGTGCCTATAACCCCATCCCCCTGTCTCCATGGGCTGAGCCAGACCCCAGCACTGCTCTCCCATCCCCAATACTGCTCTCCCTCCCTAG
Seq C2 exon
GGCTCCAAAGGTGCCCGAGGTTTGCCCGGCCCCAAGGGTGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005811:ENSGALT00000009331:75
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(6.2=28.6),PF0139113=Collagen=PU(5.9=21.4)
A:
NA
C2:
PF0139113=Collagen=PD(3.9=13.3),PF0139113=Collagen=PU(21.3=86.7)
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:
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]