MmuINT0028671 @ mm10
Intron Retention
Gene
ENSMUSG00000058626 | Capn11
Description
calpain 11 [Source:MGI Symbol;Acc:MGI:1352490]
Coordinates
chr17:45633369-45633983:-
Coord C1 exon
chr17:45633772-45633983
Coord A exon
chr17:45633409-45633771
Coord C2 exon
chr17:45633369-45633408
Length
363 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGG
5' ss Score
8.3
3' ss Seq
CTTCACTCTCTCATGCCCAGGTT
3' ss Score
7.46
Exon sequences
Seq C1 exon
TTTCAGAACCTCCGGGACATCCACCTTAAGAAAGACTTCTTCTTGAAATACCGGGACCACGGCTTTTCAGAGATCTTCATCAACTCGAGGGAGGTGAACAGCCATCTCCGGCTGCCCCCGGGGGAATACGTCATTATCCCCTCCACCTATGAGCCCCATAAAGATGCTGACTTCCTGCTTCGGGTCTTCACGGAGAAACACAGTGAGACCTG
Seq A exon
GTGAGGGGCCTGCCTCGCTCTGGCTAGGGTCCCAGCCCAAGGGCTGCCTGGTGTCAGATTCTGGTCCTCCTTCACATCAACCCTATGATTCACGGAAACTGAGGCACGAAGATGCGAGGTCTAAATTTGTGAGCCACCATATGTTTACTGGGAACTGAACTCTGGACCTCTGGAAGGGTAATCGGTGCGCTTAACCTCTAAGCCATCTCTCCAGCCCCTCTCCTCTAAATTTGTAATAGAAATAGGAATGAAACTAGAGCCCCGATGATGTAATGGAGTATTAGATACTGCTCCATATGCAGTGATAGGACCCTCCCCAGATCGCCCCCAGTACCCCCTCAGCCTTCACTCTCTCATGCCCAG
Seq C2 exon
GTTGCTGGATGACGCCAACCGGTTTGAACATCTCCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000058626:ENSMUST00000120717:13
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:
PF0106717=Calpain_III=FE(44.3=100)
A:
NA
C2:
PF0106717=Calpain_III=PD(0.1=0.0)
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:
TTCAGAACCTCCGGGACATCC
R:
TGGAGATGTTCAAACCGGTTGG
Band lengths:
247-610
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