MmuINT0028705 @ mm10
Intron Retention
Gene
ENSMUSG00000054083 | Capn12
Description
calpain 12 [Source:MGI Symbol;Acc:MGI:1891369]
Coordinates
chr7:28886533-28886772:+
Coord C1 exon
chr7:28886533-28886618
Coord A exon
chr7:28886619-28886697
Coord C2 exon
chr7:28886698-28886772
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:ENSMUST00000066880:7
Average complexity
IR
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
Other Skipping 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
- 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