MmuINT0028716 @ mm9
Intron Retention
Gene
ENSMUSG00000043705 | Capn13
Description
calpain 13 [Source:MGI Symbol;Acc:MGI:2685789]
Coordinates
chr17:73674109-73675722:-
Coord C1 exon
chr17:73675664-73675722
Coord A exon
chr17:73674178-73675663
Coord C2 exon
chr17:73674109-73674177
Length
1486 bp
Sequences
Splice sites
5' ss Seq
GATGTATCC
5' ss Score
1.64
3' ss Seq
GCCCTTAACACCCCCTCCAGCTG
3' ss Score
5.66
Exon sequences
Seq C1 exon
GGCCTCCAGGGGACACTTTCTCCTTGGACCAGTGCCAAAGCATCATGGCCCTGATGGAT
Seq A exon
GTATCCTTTGCAATCAATCCCCTCCTCCTGCAGCCCGAGGAACCCACCTCCCCCTGTGGGCTTGCCTGGGATTCTAATTACATACCAGCTCCCTCTGAACCTAGCTTATCATCACAGCCATAGCAGTAGTCACTACTGACTGGGTATCACAAGGAAGTGCATTTGTAATGCTTGCAACAGCCCTTGAGATGCAACAGCTATTATCCCGCTGAACAACAGAAGACACAGGGGCCGCAGAGGTTAACTATGTTCACCTATCTAACACAGCTGGTTGGAGGTTATGCATGGATTTGAAATAGACGTTGAAGCATCCAAGTCCCGTGTTCGAACCTCAGCCGATGCTACCTTCTGCAGTCAGAGCTATTTTCCCTTCGCCCTTTCCTCCAACACTGGAGCAGGCTTCACTGCTTGGATTCCTTACTCAAAAGGCTCCTAATTGAAAAAGATAAGTATCCAAACCTCACAAACCTTCTTGTTCTGCAGAGCACAGTAGTGGAACTCTTTATGGCTCACGTGGCTGTTTTGTCCCTGTAGACAATGATCTTGGTCTAGCTTCATGGCCGTGAGGAGCACAGGACCAAGAACCAAACTTTAACTGTGTTTATTCTCGTCCCAACACCCTCTCCAAGAACCCTTCCTCCTGTACTGACCCCCCTCCCCAGACAGGAGAAACACTGGCCATGTAGGAGGGATCCCAAACCTGGCAGCTCCTCCCCAGGCTGTAGCTGTCTCCAGAGAGAGACAGATCACCCCCCTTTCACATGGTTAACAAGGCTCGATTGTGAATTCGAAGCCAGCCATTGTCGAACAAGAAGGCTTCTTGATGGAATCATAAATCAGCCCTGTCTCGGCTGGCTGTGGTCTGGAGTCACTGGAGACACACAGAAGAATCCAAATGGCCCTTGCAGCCCTGTGGCCGGGCACCCAACTGCGGGAGGAGGAGAAAGGGGTAGAAAAGACCTGTGCATTGTACTGAGAGACTGCAAATAGAGCCTCCCCTGGGGTCCAGGGCTAGGGTAGTATGGTAGCTCTCAGAGTTCAATTATTTTTTCCCTGCATTAGTTGCCTGTCAAAAGGGGTGGCCGGGAAGCATTTATAAACAGGAAGCAATCCAGCGACACAGGGCCCAGGGATGCCACATTTACCTATCCACACTATTTCTGTATTTGCATATTCCTCCTCCCCACTCCTGCCAGGGAGCCCAGCCAAATGGTGGTTGGGGCCCCTCTCTCTATCTCTTCTGCTAGATATAACTGAAATTGATGCCTCGCTCTCAGAGATCTTTCCTTCTAACAATACATTTTATTTTGGAAAACAAATCTAAACCAGGTCACCTTCAGATAGAGTGGGAGCCAGCTGGCAAGGGGCCAGCGTGGCGCTGGGTTACTAGCTGAAGGATGGAGTGGCTCTGGCTTCATTAGCAGGACAAACAGCTCCCCTTCCCCACTGCCACCCTGGAGAGCTTAGCCCTTAACACCCCCTCCAG
Seq C2 exon
CTGAAAGTGAATGGGCGGCTAGATCAGGAAGAGTTTGCAAGACTCCGAAGTCGCCTTATCCACTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000043705-Capn13:NM_001033444:17
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:
PF138331=EF-hand_8=FE(33.9=100)
A:
NA
C2:
PF138331=EF-hand_8=PD(32.1=78.3)
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: