MmuINT0028762 @ mm9
Intron Retention
Gene
ENSMUSG00000079110 | Capn3
Description
calpain 3 [Source:MGI Symbol;Acc:MGI:107437]
Coordinates
chr2:120328123-120328329:+
Coord C1 exon
chr2:120328123-120328180
Coord A exon
chr2:120328181-120328264
Coord C2 exon
chr2:120328265-120328329
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-Capn3:NM_007601:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.166 A=NA C2=0.154
Domain overlap (PFAM):
C1:
PF138331=EF-hand_8=PU(30.5=94.7),PF0175117=Toprim=PU(14.0=73.7)
A:
NA
C2:
PF138331=EF-hand_8=FE(35.6=100),PF0175117=Toprim=FE(21.0=100)
Other Skipping Isoforms:
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: