MmuINT0028714 @ mm10
Intron Retention
Gene
ENSMUSG00000043705 | Capn13
Description
calpain 13 [Source:MGI Symbol;Acc:MGI:2685789]
Coordinates
chr17:73326475-73329678:-
Coord C1 exon
chr17:73329622-73329678
Coord A exon
chr17:73326533-73329621
Coord C2 exon
chr17:73326475-73326532
Length
3089 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGC
5' ss Score
9.37
3' ss Seq
TCTCCTGCGTTTTGAACCAGGGG
3' ss Score
7.65
Exon sequences
Seq C1 exon
GAAAGTCTTCCAGAAAATGGATCCCGAAATAGCATTTCCTACACATACATGGATCAG
Seq A exon
GTATGCTATCTTGCAACCATGAACCTCACCGTGGTGAATGGGGAAAAGTCTAGGGACTGAAACATCTCCAGTTGCTTATTGGAAATGCACAAAGGCAAAGGACTTGATCATATTAGCCCCTTCCTATCCCTGGACCATCCCCAGATACTCTGGTTGCCAAGCTCTGGAGACAAGTGATGTCCCAATGTGGGTGGAATCCCATTGGAACATAAAGCTTAGGCAAGGAGAAGATAATTATGAGCTGTGTGTAAAGGATATATTGTGGCTTAAGCCTTTAGACAAGCAGTTGGCAGAAATCTTTCTTTCTGGGGCTCGGCCATTCCCCCCACCCCAAACCTGGCACTGTTCCTCCCTGGAGCTGGCCAGCTTCAGAAAGCCCCAACAGCTCTCTTCCTGCCAAGCCACCTATGTGCACACGGGGCTTTCCTAATGGTTTAATAAACTGTAATAAAGAACTCCTTGACTCCTCGGGATAAAAGAGCTGCCAATGGTTTCGTGGGATGGGCCTTTTTACCATTAATAACAGTGTCGGTGTGGGAAGCAGAAAATGATATAGATGCTTTTGTGTACCATGGGCCAAGCAGAAGCTGAAGGAAGGAAGGATGCCTGCCCCCTGCCTCTGTACTCAGAGGGCTAATAGCATGGTGGTATCTCAGATGTAGATTGGACCCACACACCAGAAGGAGAGGGGGATGGATGGATAGTGTGGCTAGAATGAGGGGTGACTGTTGGCAAGAGCAGCCCTTCCACACTTGTCCAGGATTCAGGACAGTTCTCACTGAAACAAGGCTGACCCAGAAGACCACTGTCCCTGTCTGTGAGTTCCTGAAGGCAGAGACAACTTCATATGCATTTCTTGTCCCCAGCCACTGATCACTGTCCTTGGCCCAGAGGAGGTGCTCAATCATTTCTGTCAGATTGAATTAAGACAGATTAGCTCCCCTGGAGCAGATGCCTGAGCCTGGGTTAGCTTCTCTGAGGTGGTCAGCAGGACCTGATTAGGATGCCTAAGACCAGGCTTCTTCAGGGCAGGTGGTACATTTTCAGACAGGGTCACACACCTTGTACTTCTAAAATAAAAATATAATCTGCCGTATGATAGGATGGTCCAGACTCCCTAATCAGGACTTTTCCAAGCACCAGCGAAACGTTTGGCACCCTCTAGAGTGATTGTTAGCTGGTATTGGACATTGGTCAGAATTAGAATAAGGCAGACGGGGCATTGTGCCTAGGTCACCTCTTAGGCAGGTATCCTTGACCAAAGCACCCCTGGCACCATCCTGTGCAACCTGCAAACCATGCTCAGAGGTTGTGGCTCCCAAGACATTTTAAAGCAAAGCATTTCTCATGCATTCGCTATAACCTCTCTCCTGGTCCCTCACATTGGCTTTAACTAGACATATTCATACAGTACTTACCAACACCCATTGATGCTAGTCACTTTTATTAGCCACTGCAGTTGTGATAGCATAAACAGACGTGCCTGTCAGAAAGGACTCATGTTGGGACTGGAGAGATGGCTCAGCAGTTAAGAGCACTGACTGCTTTTCTGAAGATCCCGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACCATCCGTAATGAGATCTGATGCCCTCTTCTGGTGCGTCTGAAGACAGCTACAGGGTACTTAGACATAATAATAAATAAATCTTTAAATCTAATCTCCAGGATTAGACAGAGCAGATCTAACCACCATCCTTTATGAGTGCAATTGGCACACAGTTTCCAAACTCCTAGGACATTTCCTGCAAATACCTCTACCTCTCAAAGCTTTGATGCTCCACAGTCCCTACATGCAATCCTTGGGGAACTTGTCTGAACAGTCATCATTGTTATGCCTGCTATGAGTCTGTGAATGCTTCTAACAGGTGATAGAGTTACATCCCAGGACCACGTGTGCCCTAGGTGTAATATGGAGAAGGAAGTAGATGTGGTCCACACTCAGTTCAGTTGGCTAGTGGATAATCCTGTGAAAGTGAGTCCTTCCTTACCGTATCAACTTCTGTAAGGGGTCCAGAATCTTTGGAAGAAAAACTCAGTTAATGATAGGCACATAAAGACAACTTCTCTGATATCCCCCAAACTATAAGGTTAGAAAAATGGCCAGAGGACCAGCATCAGACACAAACAGCTTAGAGTTTATGCTTCTCTCTGTGGGGCTTTGCAAAGACAGGATATGAGGCTGCTCTCTTGCTTTTGGAGCAAGGTGGTGCTGTCAATGTTAGGAGGAGAAGGGACAGTGTGTGGAGGCTGTGAAGGCTGTCTTCTGTGAGGAGCAGCTCTCAGAAGGCCGCTAGGAAGCACTTTCTGAGACATGGACTGCCGCTCTACAACTCCACCACTGAGAGACCTAACTCCAGCACCAGCTCCCTGAAGCACAACAGCCATACTTCTCTATAAAGCTGTCATCAAAGGCACTACCCACCAGGCTGCCCAGTGCCTGTCTGCTGGAAAGGGTTAAGAGCATGACCCCACCCCAAGAGCAGACCTAGAAAATGTCCTCTTTATCCATAACTGTAGTTCTGTTTTTAATCTAAGGGAAGTTATGACACCCTCCTTTTTCCCTCAGTACCTGAAAGACTAAGTATTATCTTCCCCGACAGCAGCTTCTAGTAGCCTAGATTTTGAGTACGGTTAGCTCCAGTTGTCACACACATACGTATACAAAGTCATCACACATCTCATGGTCTTTCTGAAAGTGGAGAATACACCTAAAGGGCTGCACTGGTCATCCTGCTATGGTCCTCCTGATGGGGACCCTCAGTGTCAGCCATAAAGATAAAGGGAACAAGAAACACTTGTCCCATAATAAATGGAGGGAGACAGTATGAGGAGCTCACGCCAGCATCCCAGTGTCAGGATCAACCATTATGATGGATATTCAAGGAGGGAGTTATCAACATAGCCAGAACCCAGGGCAGGCCCAGGACAAAGAACAGGTAGACGTGCTATGGAAAGGAAGGGCTCAGAAGTCAGAGAGCTGTTACAGACTTTTGGAGATGTGTTCCTTGGTTACTGACTCCCATCTCACAACCCATTTTTCTCCTGCGTTTTGAACCAG
Seq C2 exon
GGGCTGGACATTGATGCCACCCAACTTCAGAGCCTTCTCAATCAGGAGTTCCTAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000043705:ENSMUST00000095208:15
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:
NO
A:
NA
C2:
PF138331=EF-hand_8=PU(30.4=85.0)
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
- 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