MmuINT0028735 @ mm10
Intron Retention
Gene
ENSMUSG00000026509 | Capn2
Description
calpain 2 [Source:MGI Symbol;Acc:MGI:88264]
Coordinates
chr1:182477251-182478613:-
Coord C1 exon
chr1:182478548-182478613
Coord A exon
chr1:182477309-182478547
Coord C2 exon
chr1:182477251-182477308
Length
1239 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGT
5' ss Score
9.65
3' ss Seq
TTGTGGTCATATGTCCACAGGAT
3' ss Score
8.47
Exon sequences
Seq C1 exon
ATTGACGCCAATGAGGAGGACATTGACGATGGATTCCGAAGGCTCTTTGTTCAGCTGGCTGGAGAG
Seq A exon
GTAGGTGTCACCGAGGTCCGGCTGACATAAAGAAGTGACTTCCTGGAGGAAGAGACTTCCATCTAAGGGGGAAGAAAGCAAACCAAGCAAGAGCTGAAGAATTGTCCCCGTCACTCAGACTCTTAGCTCAGCACCCCTTGTTCACATCCTCTCAAGCCCTCTGCTGACTTCTGGGGCAGCCCTCTCCATAAGATTCTCATGTTGAGGTTTTTTAATGTGTGTCCTCTCTGTCCCATGCCAACGGAGACATGGAACTTGACCTCCATACACATACCTGAGATCAAAGGGTCCCATTCCTCCGGAATGTAAGCGGTTTACACCAAAGAATTACTTGCCTTTTTCTTGAACTAGTTCCCTAGCCCTACAGTCTCGCTACACAGACAGTCCGCCCTTTCTTCCCAGCAACTCCGGAAGCAAAGGCCCCTTCTCCACTGTGTAGCTCTCTCCAGTGTAACCTGGAAGCCGGCTCATCACAGTGCTAAGTCAGATGCTGTTCACGCTGAGGCACCACCTGTCTCCCTCCCCTCAGGTTCTCAAGGGAAGGGGCCTCAGAGAAACTTACCATCCCCACTGACTGAACCACACACATCCCTCCACACACACACCCTGGGCCTTATCCATGTTGCATACATTACACAAACACATCTAAGTGAACAGAGTTGGCTGGACCATGTCTGAGGAACTCTGACAAGTGACCCCAGACAGATGAGCCATCTTGGAAATAGCTGATTTTTTTTCATTAATTTATTTATTTACTCACCTATCAGCCCTCCTCTCTCCCAGTGCCCCTCACACAGGTCCTCCCCCATTCTCCCCTCCCCTTCTCTGAGAAGAATGACCCCTTCCCTCTGGGTAACCCCCCTGCTTCCTACACATCCAGTCACTGCAGGACTAGGTGCATCCTCTCCCACAGAGGCCAGGCAAGGTGACCCAGGAAATGGCTGGTCTTAAGCAGTTTCAGGAAGCCCAAAGTCTGAGTTGTAGAGGGTAGAGAAGGCTTGCCAGGTAGGAGGGATGGTTAGAGAGCACTAGGCTGCCACAGAGGAAGGGTAACTGACTAGACCTAGTGTGTGCCCTCCATTATGATAGTATGCTAAACCCAAGCCAGGGCAGTACTTAGTGTAGGCTGGGGACAATAGCACCAACATCACTTCAGTTGTTAACAGTATATTCAAGATTGCATGGCTAAGATGCTAGCCACAGAGAGCCCATAATGATGTTGTGGTCATATGTCCACAG
Seq C2 exon
GATGCAGAGATCTCTGCCTTTGAGCTGCAGACCATCTTAAGAAGAGTTCTAGCCAAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026509:ENSMUST00000068505:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.045 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138331=EF-hand_8=PU(0.1=0.0)
A:
NA
C2:
PF138331=EF-hand_8=FE(31.1=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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