HsaALTA1017505-1/2 @ hg38
Alternative 3'ss
Gene
ENSG00000114270 | COL7A1
Description
collagen type VII alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr3:48588870-48589470:-
Coord C1 exon
chr3:48589327-48589470
Coord A exon
NA
Coord C2 exon
chr3:48588870-48588995
Length
0 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TACCTTGCCTCTGTCCCCAGCCC
3' ss Score
9.43
Exon sequences
Seq C1 exon
GCCCAGAGAAATCCCAGTTGGTTTCTGGGGAGGCCACGGTGGCTGAGCTGGATGGACTGGAGCCAGATACTGAGTATACGGTGCATGTGAGGGCCCATGTGGCTGGCGTGGATGGGCCCCCTGCCTCTGTGGTTGTGAGGACTG
Seq A exon
NA
Seq C2 exon
CCCCTGAGCCTGTGGGTCGTGTGTCGAGGCTGCAGATCCTCAATGCTTCCAGCGACGTTCTACGGATCACCTGGGTAGGGGTCACTGGAGCCACAGCTTACAGACTGGCCTGGGGCCGGAGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000114270-21-31,21-30-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.694 A=NA C2=0.093
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(51.9=83.7)
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
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTATACGGTGCATGTGAGGGC
R:
AAGCATTGAGGATCTGCAGCC
Band lengths:
119-146
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains