GgaINT0022860 @ galGal3
Intron Retention
Gene
ENSGALG00000005811 | COL7A1
Description
NA
Coordinates
chr12:9325390-9325741:+
Coord C1 exon
chr12:9325390-9325538
Coord A exon
chr12:9325539-9325563
Coord C2 exon
chr12:9325564-9325741
Length
25 bp
Sequences
Splice sites
5' ss Seq
GAGGCGTGC
5' ss Score
-2.4
3' ss Seq
CCCTTGCCTGCTGCTGCCAGCTG
3' ss Score
6.05
Exon sequences
Seq C1 exon
GTCAGGAGCAGTCTCGCTTCCTCCCTGCCAACCCTACTGCCTTCACCATCGAGGGGCTGCGAGCTGGCGCCATCTATGCCATTGGTGTCACAGCCATCATTGATGGCCGCGAGGGTCCCCCTGTCACCACCATGGGGAGGACAGGTGAG
Seq A exon
GCGTGCCCTTGCCTGCTGCTGCCAG
Seq C2 exon
CTGGTGCCAGGTGCCTTGACTGCAGGTGACGGTGGTTCTCCCTGCATCACAGCAGCTGAGCAGGTGGGGACAGTATCCCGGTTGGAGGTGCAGTCATCCAGGAGCAATGTTGCCCGTGTCACCTGGGTCGGTGTGCCGGGAGCCACAGCGTACCGTGTGGTGTGGAGCCGTCGGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005811:ENSGALT00000009331:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.340 A=NA C2=0.350
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(51.3=80.0)
A:
NA
C2:
PF0004116=fn3=PU(58.7=61.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATGCCATTGGTGTCACAGCC
R:
CTGTGATGCAGGGAGAACCAC
Band lengths:
127-152
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]