MmuALTA0004439-2/2 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000004098 | Col5a3
Description
collagen, type V, alpha 3 [Source:MGI Symbol;Acc:MGI:1858212]
Coordinates
chr9:20809940-20815067:-
Coord C1 exon
chr9:20814866-20815067
Coord A exon
chr9:20810099-20810101
Coord C2 exon
chr9:20809940-20810098
Length
3 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
ATCCTGGTGTCTTTCTACAGCAG
3' ss Score
7.75
Exon sequences
Seq C1 exon
GGGGTCTCGGGCAGTCTCCAGCAGATCCTCACAGCCTCCGGCTGTCCAGAGTGACTGCTCCCAGGAAGACCAGTCCACATCCCCCTTGGCCTTGGTGCACCAGGCCCCGCTGGGATGAGAAGCTGCCGGAGACTGGATCAGCTTCAGGCCGGCCTCTGCCTGCTCCTGGCCTCCCTGCAGCTCGTGTCCTGGACGCTGGCTG
Seq A exon
CAG
Seq C2 exon
AACCTGTGGACGTACTGGAAGCCTGGGGTGTGCATAGAGACCAGGCTGGGGTGGCTGAAGGGCCTGGCTTCTGCCCCCTGAGGATTCCACAGGGTGACCGAGCATTCAGGGTGGGCAAGTCCAGCCTTCTCAGTGTCCCCACGTGGCAGCTCTTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004098-0-4,0-3-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGACTGGATCAGCTTCAGGC
R:
AGGCTTCCAGTACGTCCACAG
Band lengths:
98-101
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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