MmuINT0028705 @ mm9
Intron Retention
Gene
ENSMUSG00000054083 | Capn12
Description
calpain 12 [Source:MGI Symbol;Acc:MGI:1891369]
Coordinates
chr7:29671552-29671791:+
Coord C1 exon
chr7:29671552-29671637
Coord A exon
chr7:29671638-29671716
Coord C2 exon
chr7:29671717-29671791
Length
79 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
TCTCACATTGGTCTCCTCAGCTG
3' ss Score
6.34
Exon sequences
Seq C1 exon
ATGTCTCTGGGCTTCACCAAGGTGCGGCTGCTGCGGCTGAGGAACCCCTGGGGCCGCGTGGAGTGGTCCGGGCCCTGGAGTGACAG
Seq A exon
GTAGGATGGGCTTGGGGTGGGTGGGGGCGTGGTCAGGGGCGTGGCTCCACATGTCTTCCTCTCACATTGGTCTCCTCAG
Seq C2 exon
CTGCCCACGCTGGGACATGCTCCCTTCTGAGTGGCGAGATGCCCTGCTTGTGAAAAAGGAGGATGGCGAGTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054083-Capn12:NM_001110807:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(9.4=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(8.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTCTCTGGGCTTCACCAAGG
R:
CAGAACTCGCCATCCTCCTTT
Band lengths:
160-239
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: