GgaINT0022859 @ galGal3
Intron Retention
Gene
ENSGALG00000005811 | COL7A1
Description
NA
Coordinates
chr12:9325190-9325538:+
Coord C1 exon
chr12:9325190-9325319
Coord A exon
chr12:9325320-9325389
Coord C2 exon
chr12:9325390-9325538
Length
70 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
ATCTCGGCTGTCTCTCCCAGGTC
3' ss Score
9.36
Exon sequences
Seq C1 exon
GCAGAGTTCCCGGCGGTGGGCAGTGTCTCGGAGCTGCGGGTGACGGAGGCCGGCCCCAGCCAGCTGCGGGTCACATGGAGGGGGCTGCCGGGCGCCGGGGGGTACCGGCTGACGTGGAGGGCCAGCGATG
Seq A exon
GTGAGTGCTGGGCTTGGAGGTGATGCGGTGGTGCCGTGGGAGCTCTCCCCATCTCGGCTGTCTCTCCCAG
Seq C2 exon
GTCAGGAGCAGTCTCGCTTCCTCCCTGCCAACCCTACTGCCTTCACCATCGAGGGGCTGCGAGCTGGCGCCATCTATGCCATTGGTGTCACAGCCATCATTGATGGCCGCGAGGGTCCCCCTGTCACCACCATGGGGAGGACAGGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005811:ENSGALT00000009331:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.091 A=NA C2=0.340
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(47.4=84.1)
A:
NA
C2:
PF0004116=fn3=PD(51.3=80.0)
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:
CAGCTGCGGGTCACATGG
R:
TGATGGCTGTGACACCAATGG
Band lengths:
169-239
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]