MmuINT0028704 @ mm10
Intron Retention
Gene
ENSMUSG00000054083 | Capn12
Description
calpain 12 [Source:MGI Symbol;Acc:MGI:1891369]
Coordinates
chr7:28886371-28886618:+
Coord C1 exon
chr7:28886371-28886445
Coord A exon
chr7:28886446-28886532
Coord C2 exon
chr7:28886533-28886618
Length
87 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
ACTGATGACTTTGTCTTCAGATG
3' ss Score
7.88
Exon sequences
Seq C1 exon
AGTGATCGGGGTGAGATCCGCACAGATGAAGGGCTGGTGAAGGGACATGCTTATTCTGTCACAGGCACGCACAAG
Seq A exon
GTGAGACGCTCCATAGGTGGACTGGGCTAACCCTACCCTCTGTAACGATGCCCCTCACACCACCCTCACTGATGACTTTGTCTTCAG
Seq C2 exon
ATGTCTCTGGGCTTCACCAAGGTGCGGCTGCTGCGGCTGAGGAACCCCTGGGGCCGCGTGGAGTGGTCCGGGCCCTGGAGTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054083:ENSMUST00000066880:6
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(8.1=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(9.4=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:
AGTGATCGGGGTGAGATCCG
R:
CTGTCACTCCAGGGCCCG
Band lengths:
161-248
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