GgaINT1010131 @ galGal4
Intron Retention
Gene
ENSGALG00000005811 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr12:9067766-9068117:+
Coord C1 exon
chr12:9067766-9067909
Coord A exon
chr12:9067910-9067991
Coord C2 exon
chr12:9067992-9068117
Length
82 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGGTTCTCCCTGCATCACAGCAG
3' ss Score
4.45
Exon sequences
Seq C1 exon
GTCAGGAGCAGTCTCGCTTCCTCCCTGCCAACCCTACTGCCTTCACCATCGAGGGGCTGCGAGCTGGCGCCATCTATGCCATTGGTGTCACAGCCATCATTGATGGCCGCGAGGGTCCCCCTGTCACCACCATGGGGAGGACAG
Seq A exon
GTGAGGCGTGCCCTTGCCTGCTGCTGCCAGCTGGTGCCAGGTGCCTTGACTGCAGGTGACGGTGGTTCTCCCTGCATCACAG
Seq C2 exon
CAGCTGAGCAGGTGGGGACAGTATCCCGGTTGGAGGTGCAGTCATCCAGGAGCAATGTTGCCCGTGTCACCTGGGTCGGTGTGCCGGGAGCCACAGCGTACCGTGTGGTGTGGAGCCGTCGGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005811:ENSGALT00000009331:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.306 A=NA C2=0.256
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(51.3=81.6)
A:
NA
C2:
PF0004116=fn3=PU(46.8=86.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACTGCCTTCACCATCGAGGG
R:
ACATTGCTCCTGGATGACTGC
Band lengths:
168-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]