MmuINT0028674 @ mm9
Intron Retention
Gene
ENSMUSG00000058626 | Capn11
Description
calpain 11 [Source:MGI Symbol;Acc:MGI:1352490]
Coordinates
chr17:45769648-45769881:-
Coord C1 exon
chr17:45769824-45769881
Coord A exon
chr17:45769713-45769823
Coord C2 exon
chr17:45769648-45769712
Length
111 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
ACCCCACCCCTCCTTCACAGTAA
3' ss Score
7.38
Exon sequences
Seq C1 exon
GATGGCGAAGTGGATATGTATGCACTACACAAACTTCTCAACAGGATGACAGCTAAAT
Seq A exon
GTGAGTGTCCCACCCCTCCCTCATGGCTCACCCCACCTCTGCCCCCCCCCAAAATCTGGCCTCCCACTGTTCTCACCCACCTCTTCTTCCCACCCCACCCCTCCTTCACAG
Seq C2 exon
TAAGGAACTTCAAGACGAAGGGCTTTAGCTTGGAAGTCTGTCGCCGGATGATCAACCTCCTGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000058626-Capn11:NM_001013767:16
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138331=EF-hand_8=FE(31.1=100),PF0175117=Toprim=PU(18.1=95.0)
A:
NA
C2:
PF138331=EF-hand_8=FE(34.4=100),PF0175117=Toprim=FE(20.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCGAAGTGGATATGTATGCA
R:
GAGGTTGATCATCCGGCGAC
Band lengths:
115-226
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: