MmuINT0028723 @ mm9
Intron Retention
Gene
ENSMUSG00000043705 | Capn13
Description
calpain 13 [Source:MGI Symbol;Acc:MGI:2685789]
Coordinates
chr17:73715266-73716604:-
Coord C1 exon
chr17:73716532-73716604
Coord A exon
chr17:73715382-73716531
Coord C2 exon
chr17:73715266-73715381
Length
1150 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TATAGTTTTATCCTTCCCAGGAG
3' ss Score
6.62
Exon sequences
Seq C1 exon
GATTTACCCTTCTACCCCCCTCACTTCATTCTGGAAGGTGCAAGCAGATTTGACATCCACCAAGGAATAGCAG
Seq A exon
GTAAGATTCCATAGTTCCCATCCCAGTGTTTTGCCTTGGTCGTCACATGGGAAATCATTGTCTTAAGCCAAGCTCAGGAATACCTATCCTGTATCTATCTCCTATCTATGTATACCTACCCTGTATACTGCTACCAGCCTGTAATCTGCCCATTTTAGGATTTCCCCTAACTGGAGAAAGGTGTCTGGGGGGTATCTTTGTGATTTCTGTGCTGAGCACAGTGGTTGGCATAAAAAAAAAAAGCATTCAGAAAATTGATGGCTTTGGCAGTGAAGGAGGGGCACTGAGAGGGAGAAATGGAGTATTTAGAAGAGCTCACACTGATACCGATGGAGAAGGCCAAGGCTACTCATCCCTCTAGGGGAAATAAAGTCAACTCCTGCATGGGCTAGAGAGTCCCCTGACAGAAACGAGCAGGACAAACATTAGCTAAGGAAAACACCAGTGTGTTTTCTGCAATTGTATAAAGTATCATAGCTGACTATGTTGAGTGATTTTTAAAAATTACAATGATGCCAGCCCTGGGAAATTCTAGGAAAAAGAATCAGAGAGCAAGTTGGACCCCTTAATTGCCAAAACCTGTCTGGGATTTCCCTAGCATTCCTCATCAGACCATACCCCACCCCTGCCCCCTAATACCTACACCACCAGCATTAGCACCTCTTTTCCATCTTGCTTGGAACTGGCTCAGTAAATCTTGTTCCCCAGTTTTTCTCCCTCGAGCCTATACTGGGCAAAAATTCAGTATAGGTTGACTATCCTTAGCCCAAATTTTAATGGGTGCAAACTCTGGAATGTTTTCAGTACTACACAAGAAGAAAATTATATACCTGATCTCACATGGGAAGTCACAGTCAAAACACGTGTGTGAAAAATAAGGCTTAAGAAAAATAAGTCTGAGTATATGAGGGAGATGTATGGGAAACACAAAGGAAATCACATTTAGATTTGGGTCTCATTCCCATATAGTTTATTATGTATGTGAAAATAATCCAAAATTTAAAATAATTTAAAAATGTCTGGTCTCAAAGATTTCAGATTGATGTTCACTCTGTACTCATAGGGAGATTTGATATACAGAACCCATAAAATTTAGGGGGTGGGGTTTCCAGGCACAATGAGCTGCTTCTTATAGTTTTATCCTTCCCAG
Seq C2 exon
GAGACTGCTGGTTCCTGGCAGCACTGGGCTCCCTGACCCAGAACCCGCAGTGTCTGCAGAAGATCCTGATGGACCAAAGCTATTCGCACCAGTATGCTGGGATTTTCCAGTTCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000043705-Capn13:NM_001033444:3
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(8.0=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(12.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: