MmuALTA0004439-1/2 @ mm9
Alternative 3'ss
Gene
ENSMUSG00000004098 | Col5a3
Description
collagen, type V, alpha 3 [Source:MGI Symbol;Acc:MGI:1858212]
Coordinates
chr9:20614384-20619511:-
Coord C1 exon
chr9:20619310-20619511
Coord A exon
NA
Coord C2 exon
chr9:20614384-20614542
Length
0 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
CTGGTGTCTTTCTACAGCAGAAC
3' ss Score
5.84
Exon sequences
Seq C1 exon
GGGGTCTCGGGCAGTCTCCAGCAGATCCTCACAGCCTCCGGCTGTCCAGAGTGACTGCTCCCAGGAAGACCAGTCCACATCCCCCTTGGCCTTGGTGCACCAGGCCCCGCTGGGATGAGAAGCTGCCGGAGACTGGATCAGCTTCAGGCCGGCCTCTGCCTGCTCCTGGCCTCCCTGCAGCTCGTGTCCTGGACGCTGGCTG
Seq A exon
NA
Seq C2 exon
AACCTGTGGACGTACTGGAAGCCTGGGGTGTGCATAGAGACCAGGCTGGGGTGGCTGAAGGGCCTGGCTTCTGCCCCCTGAGGATTCCACAGGGTGACCGAGCATTCAGGGTGGGCAAGTCCAGCCTTCTCAGTGTCCCCACGTGGCAGCTCTTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004098-0-1,0-0-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No 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 Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
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:
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
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: