MmuINT0028762 @ mm10
Intron Retention
Gene
ENSMUSG00000079110 | Capn3
Description
calpain 3 [Source:MGI Symbol;Acc:MGI:107437]
Coordinates
chr2:120502387-120502593:+
Coord C1 exon
chr2:120502387-120502444
Coord A exon
chr2:120502445-120502528
Coord C2 exon
chr2:120502529-120502593
Length
84 bp
Sequences
Splice sites
5' ss Seq
AACGTGAGC
5' ss Score
6.06
3' ss Seq
ACCCTTCTCCATCCCCCCAGACA
3' ss Score
10.68
Exon sequences
Seq C1 exon
GACATGGAGATCTGTGCAGATGAACTCAAGAATGTCCTCAACACAGTGGTGAACAAAC
Seq A exon
GTGAGCGACCCACGCCGGATGTGGGGGATGGGCAGGGGCCCCAGCTGTCTGAAAGCAGCTCCTCACCCTTCTCCATCCCCCCAG
Seq C2 exon
ACAAGGACCTGAAGACACAAGGGTTCACGCTGGAGTCCTGCAGAAGCATGATAGCTCTCATGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079110:ENSMUST00000028749:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.190 A=NA C2=0.179
Domain overlap (PFAM):
C1:
PF138331=EF-hand_8=PU(50.0=29.0)
A:
NA
C2:
PF138331=EF-hand_8=FE(34.4=100)
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACATGGAGATCTGTGCAGA
R:
ATGAGAGCTATCATGCTTCTGC
Band lengths:
119-203
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