MmuALTA1014321-1/2 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000025650 | Col7a1
Description
collagen, type VII, alpha 1 [Source:MGI Symbol;Acc:MGI:88462]
Coordinates
chr9:108958563-108959356:+
Coord C1 exon
chr9:108958563-108958706
Coord A exon
NA
Coord C2 exon
chr9:108959237-108959356
Length
0 bp
Sequences
Splice sites
5' ss Seq
CTGGTCAGA
5' ss Score
3.96
3' ss Seq
CCCATTATCTCCCTCTCCAGATC
3' ss Score
10.69
Exon sequences
Seq C1 exon
GTCCAGAGTCCAGCCGGACGCTGACCCCAGACTCCACTGTCACGGACATCCTGGGGTTGCAGCCTAGCACCTCTTATCAAGTCGCTGTCTCAGCACTTAGAGGGAGAGAAGAGGGGCCCCCTGTGGTCATCGTGGCTAGAACTG
Seq A exon
NA
Seq C2 exon
ATCCACTGGGCCCAGTGAGGAGAGTCCACTTGACTCAGGCTGGCAGCTCATCTGTCAGCATCACCTGGACTGGGGTTCCCGGTGCCACAGGATACAGGGTTTCCTGGCACTCAGGCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025650-19-20,19-19-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.469 A=NA C2=0.195
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(52.6=83.7)
A:
NA
C2:
PF0004116=fn3=PU(46.8=90.2)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
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:
AGACTCCACTGTCACGGACAT
R:
AAGTGGACTCTCCTCACTGGG
Band lengths:
147-189
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types