GgaALTA1009157-2/2 @ galGal4
Alternative 3'ss
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
chr12:9067992-9067994
Coord C2 exon
chr12:9067995-9068117
Length
3 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
CAG
Seq C2 exon
CTGAGCAGGTGGGGACAGTATCCCGGTTGGAGGTGCAGTCATCCAGGAGCAATGTTGCCCGTGTCACCTGGGTCGGTGTGCCGGGAGCCACAGCGTACCGTGTGGTGTGGAGCCGTCGGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005811-15-16,15-15-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
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 Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATGCCATTGGTGTCACAGCC
R:
GATACTGTCCCCACCTGCTCA
Band lengths:
92-95
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]