MmuALTA1013202-2/3 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000024942 | Capn1
Description
calpain 1 [Source:MGI Symbol;Acc:MGI:88263]
Coordinates
chr19:6013996-6014468:-
Coord C1 exon
chr19:6014201-6014468
Coord A exon
chr19:6014045-6014065
Coord C2 exon
chr19:6013996-6014044
Length
21 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGA
5' ss Score
10.65
3' ss Seq
CATGACCGTGGGTCTTGTAGGAA
3' ss Score
7.72
Exon sequences
Seq C1 exon
GATGACAGAGGAGTTAATCACCCCTGTGTACTGCACCGGGGTGTCAGCCCAAGTACAGAAGAAGCGGGACAAGGAGCTGGGCTTGGGCCGCCATGAAAACGCCATCAAGTACCTGGGCCAGGATTATGAAACGCTTCGGGCAAGATGCCTGCAGAGTGGGGTCCTCTTCCAAGACGAGGCCTTCCCTCCGGTTTCTCATAGCCTGGGCTTCAAGGAACTGGGTCCTCATTCCTCTAAAACCTATGGCATCAAATGGAAGCGGCCTACG
Seq A exon
GAACTGATGTCAAACCCCCAG
Seq C2 exon
TTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024942-7-8,7-7,7-6-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.022 A=NA C2=0.014
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=PU(11.3=38.2)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(37.1=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCTCCGGTTTCTCATAGCC
R:
GTGGCTCCATCCACGATGAA
Band lengths:
106-127
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