GgaINT0022857 @ galGal3
Intron Retention
Gene
ENSGALG00000005811 | COL7A1
Description
NA
Coordinates
chr12:9324744-9325100:+
Coord C1 exon
chr12:9324744-9324872
Coord A exon
chr12:9324873-9324957
Coord C2 exon
chr12:9324958-9325100
Length
85 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
TGGCACCCTGCTCCCTACAGACG
3' ss Score
7.73
Exon sequences
Seq C1 exon
GTGTGGAGGTGCCAGTGGGTGCGGTGTCGGATCTCCGTCTCATCGAGGATTTGGGCAGGAGGGTGCGGCTGGGCTGGACCGGTGTCCCCGGTGCCACTGAGTACAAAGTGACGGTGCGCAACACCCAGG
Seq A exon
GTGAGTCGGGAGGATGGGGCCACGGTGCCATTTGCTTGGCATCCCCCGTGGCACTGAGGGCCCCGTGGCACCCTGCTCCCTACAG
Seq C2 exon
ACGGCACCGAGAGGACGAGGCGCGTCCCAGGCACGCAGACAGCGCTGGAGCTGGGTGACCTGCGGGAAGGTGTCACCTACCTGGTGCGTGTCTCAGCCCTCGTGGGCAGCCGGGAAGGCAGTGCCGCTGCACTCAGCATCCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005811:ENSGALT00000009331:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.227 A=NA C2=0.333
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(46.8=84.1)
A:
NA
C2:
PF0004116=fn3=PD(51.9=85.4)
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:
ATCGAGGATTTGGGCAGGAGG
R:
TGAGACACGCACCAGGTAGG
Band lengths:
183-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]