MmuINT0028684 @ mm9
Intron Retention
Gene
ENSMUSG00000058626 | Capn11
Description
calpain 11 [Source:MGI Symbol;Acc:MGI:1352490]
Coordinates
chr17:45776752-45779585:-
Coord C1 exon
chr17:45779417-45779585
Coord A exon
chr17:45776836-45779416
Coord C2 exon
chr17:45776752-45776835
Length
2581 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGC
5' ss Score
6.95
3' ss Seq
CTCTCCCTTCTTTTCTGTAGGTC
3' ss Score
11.47
Exon sequences
Seq C1 exon
GCTGATCGGATCCTACGGAGCGCTGTCTGGAGGCAGCACTTTGGAGGGTTTGGAAGATTTCACAGGCGGCGTAGCACAGTGCATTCCGCTCCAGAAGCCCCCTGGCAACATGCTAAGGCTCCTCAAGAAAGCCCTGGAGAAGTCTTCCCTCATGGGCTGTTCCATTGAA
Seq A exon
GTAAGCCAAGCTGGGTCTTGTTGGATATTGTCGCTCCCCACCCCGACCCCAAGGCTCTTACCCCGCAACGACTCATCACTAGCTACCCCTTTCTTGAACTAATTTTTGTCTGCCTGTAGTGCAGAATGACTGTTCTCACCGGGCACAGCCTCCGAGTTGTTTCGACTTTCTCTTTCTGTGACCCCTTAGTAACTCATAATGCAAATTTTCATAGCTTGTCTTCTCAAGGGAGAAGGGAGAAGGTTCCAGAAAGGCAGTGACCTTTTTTTTTTTTTTTTTTTTTTTTGGCAGTGACCTTTATGGGATGCATTCACTATTGGACCCTGGGACTGTGGACGATACCCAGCATGCATTAGGCACTCAACAAATATTTGTTCAAATAAATAAATGTACCCAGAGTGCTTCCATGTAACCGCGGTTATGGGAGCGGGGTATTTATTTCAGGCAGAGTAGAACTTACTCTTCGCAAAGCCTGCACACAGATGCTTGCTTCTGCAGGCTGTACTCGTAATAGCAAAGAAAATCGGAGTTAGTTGCCTTTCTGCGGGTGACTCAATTAAGTTAAACCAATTGATTCTTTTTTCTTTCTTTCTTTTTTTTTGGTGGGGGGCTTGGGGGGTTCGAGACAGGGTTTCTCTGTATAGCCCTGGCTGTCCTGGAATTCACTTTGTAGACCAGAAATCCACCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGTGTGCGCCACCACACCAGGCTAAACCAATTAATTCTTACATGCCATAGAGTACAGACAACGACAGCCCCTAACAATAGGGGCCTCTCTATGACCTTCTTGTAATGACAGCATTGTCCTGGAGTATTAATGATGGTCAGGGGAGGAAGGAGAGGATGAGGGGACCCTGGACACAAAGGCCCTTTAGAGATGCAAGCAGTAAAGAACCTGGCCCATAACTTTGGTGACAAATCCATGAAACTACATCTGTGATAAAGCTGCACAGCCAACTGCAAGTGACCAGGGACAAAGCTAGGAAGAAGGGGCTGGAGAGGTGGCTCCACGGTCTGCTTTTCCAGAGGACCAGGGTTCAATTCCCAGCACACATGGCAGCACACAGCTGTCTGTAACTCCAGTCCTAGGCGATCCAAACCTTCTTCTGGCCTCCATAGTGCGCAGACACACACAGCCAAAAACACTCACACACACACACACACACACACACACACACACACACACACACACACACACTTCATAAGCTAGAGGGAGATATGCAGGCTGCGTCAAAACCTGCATCCTGGTGCTTGCTTTGTTCTGTGAGCTTTTTGTTTTGTTTTGTCCTCTTACCTGTTTACTTAGGCTTTTGGTTTTGTTTGTTTGTTTGTTTGTTTGTTTGAGACAGGGTCTCACTATGTACTCCTGGCTGTCCTCAAACTCAGAGAAACTTGCCTACCTTCACCTCCCAAGTGCTCTAGGCTTACTCCTATACATTCAACTTATAGTACAGCATTGCAAAACATTGGAAATCCGAACTAGGGGAACAAAGGCTCTTCCTGTACTACTGCGGGTGAATCACCAATTGCTTCCGAATCTAATGTACAGGAGCTGAGGAGACGGCTCAGTAGGTGTTTCCTCTCCATGTGAGATCTAAATCTCAGCCGGGCAGTGGTGGCGCACGCCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGTGGATTTCTGAGTTCAAGGCACAGCCTGTTCTACAGAGTGAGTTCCAGGACAGCCAGGGCTATACAGAGAAACCCTGTCTCAAAAACAAACAAACAAACAAACAAACAAACAAACAAACATCTGAGTTCAAATCCCCTGCACCCACATTAAAACAAACAAAAAAACAAACAAACAAAAAACCCAGCAGGGCTGTGTGTGCCTATAGCCCCAGTGCTGAGCATAAAGACTTGGAACTTGCTGGTCAGCCTATATATCCCAAAGCAATAAGCTTTACCTTCAGTGAGAGATTATGTCTCAAAGTGTAACTCCAAGTTCCCCAGAATCCAATGCCACCTTCTGCCACTCCTAGGGTACCAGACACACATGTGTATCAGACAAACATGCAGCAAAACTCTCATAACACATAAAATCAAAATAAGCATTTATTTAAAAAATACAGAAGAGATTCAGTGGCTTTCTTTGGCCATCTCATGTATTCACATTCACCACACACATGAGTGACATCTATAGTCTCTCTCTCTCTGTCTCCTCTCTCTCTCTCTCCCTCTCTCTCTCTCTGTCTCTCTCCCTCCCTCCCTCCCCCCATCTCCCTTTCTCTCTCTCTTCCTTTCCCTTCTCCCTCTCTGTGCCAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAAGTATAAGCAAGGTGTAGTGTCTCATGTCTATAAACCCTCAAGAGGCTGAGGCTGGAGAATCACTCTTGGCTACATAGAGAATTTGAAAGCCTCTAGGCCATATTAGACATGCCCTCTTGTAGATATAATATTCGTGTTACAAATCACATAAAATGATGGCTGTCTTAGGATTTCCAGGCCAGATCTTAAACACTCTCCCTTCTTTTCTGTAG
Seq C2 exon
GTCACAGACAATAGTGAAGTAGAAACCATGACACATAACATGCTGGTGCGAGGACATGCTTATGCAGTGACTGGCCTAGAGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000058626-Capn11:NM_001013767:6
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(32.2=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(9.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
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: