GgaINT0022922 @ galGal3
Intron Retention
Gene
ENSGALG00000005811 | COL7A1
Description
NA
Coordinates
chr12:9340220-9340413:+
Coord C1 exon
chr12:9340220-9340264
Coord A exon
chr12:9340265-9340368
Coord C2 exon
chr12:9340369-9340413
Length
104 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TGCTTCTGTCCTCCTGCCAGGGG
3' ss Score
9.6
Exon sequences
Seq C1 exon
GGCTCCAAAGGTGCCCGAGGTTTGCCCGGCCCCAAGGGTGAGAAG
Seq A exon
GTGAGGAGGGTGTCATGGGTGTACCAGGCTCTCTTGGGTTCCAGCCATCCCCATTCCCCCCACCTGTCACCCACCCCTGCTTTTTGCTTCTGTCCTCCTGCCAG
Seq C2 exon
GGGGAGCCTGGAGGAGCTGGGGAGCCTGGAGACCCCGGCGAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005811:ENSGALT00000009331:76
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(3.9=13.3),PF0139113=Collagen=PU(21.3=86.7)
A:
NA
C2:
PF0139113=Collagen=FE(27.5=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:
CCAAAGGTGCCCGAGGTTTG
R:
ATCTTCGCCGGGGTCTCC
Band lengths:
86-190
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]