MmuINT0028692 @ mm9
Intron Retention
Gene
ENSMUSG00000054083 | Capn12
Description
calpain 12 [Source:MGI Symbol;Acc:MGI:1891369]
Coordinates
chr7:29674092-29674275:+
Coord C1 exon
chr7:29674092-29674134
Coord A exon
chr7:29674135-29674215
Coord C2 exon
chr7:29674216-29674275
Length
81 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGAACTCCTCCTCCCCACAGGCC
3' ss Score
12.02
Exon sequences
Seq C1 exon
GGAGATCGATGACGTGATCAGCGCAGACCTGGACGCCCTCCAG
Seq A exon
GTGAGGACTGTTGTAGGTGGGGACAAGACTCTAGAGGGCGGGCAGGGCTTTGGGAAGGAACTGAACTCCTCCTCCCCACAG
Seq C2 exon
GCCCCCTACAAGCCCCTGGAGCTGGAGTTGGCACAGCTATTTTTGGAGCTGGCTGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054083-Capn12:NM_001110807:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.056 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=PD(1.8=50.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGATCGATGACGTGATCAGC
R:
CTCTCCAGCCAGCTCCAAAAA
Band lengths:
103-184
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: