MmuINT0028703 @ mm9
Intron Retention
Gene
ENSMUSG00000054083 | Capn12
Description
calpain 12 [Source:MGI Symbol;Acc:MGI:1891369]
Coordinates
chr7:29670747-29671464:+
Coord C1 exon
chr7:29670747-29670915
Coord A exon
chr7:29670916-29671389
Coord C2 exon
chr7:29671390-29671464
Length
474 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
ACAATCTTCGCCTCCTCCAGAGT
3' ss Score
7.31
Exon sequences
Seq C1 exon
GCTCCATGGCTCCTACGAGGTAATGCGAGGAGGTCACATGAACGAGGCTTTTGTGGACTTTACAGGAGGCGTGGGTGAGGTCCTCTACTTGAGACAAAACACTCCAGGTGTCTTTGCTGCCCTTCGCCACGCATTGGCCAAGGAGTCCCTTGTGGGTGCTACTGCCCTG
Seq A exon
GTGAGAGCTGGGCTCCCATGTGGACCTCCACTAGACCAACTTAGTCAGGGATGAGGTGGGAGGGGAGCCTTAGCATCCAGTGTCTTTCTTACCTTCTGCGGTTGACTCCCCCTCTCCCCCCAGATCCTCAATGATAGATTCTAGGCCAGAGTTCTACATATAAGCTACATCCCTCCCCCCACCTCCATTTTTACTTTTCATTTCGAGGCAAAGTCTAAGTTACCTACACGGGCCTTGAACATGTCACGCATCAGCCTTCTGTGTTGCTCGAATCCCAGGCCTGTAGTGCAGAGTCCGGGTTTCCCCCATCTCCTATCTGTTACTCCAATTGCTCTCCCCAGCACTCTCTCTGAGTCCCTTGGCATTTTATGCTGCTTTGAGAGCTCCGGGATTGGAAGCATGAGGATGGGTTGGGGGGCTGGGGAGAGATGCTTCTACCTCCCACCCGAGGCTCACAATCTTCGCCTCCTCCAG
Seq C2 exon
AGTGATCGGGGTGAGATCCGCACAGATGAAGGGCTGGTGAAGGGACATGCTTATTCTGTCACAGGCACGCACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054083-Capn12:NM_001110807:5
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(18.9=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(8.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCATGGCTCCTACGAGGTA
R:
GTGCGTGCCTGTGACAGAATA
Band lengths:
240-714
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: