MmuINT1006034 @ mm10
Intron Retention
Gene
ENSMUSG00000043705 | Capn13
Description
calpain 13 [Source:MGI Symbol;Acc:MGI:2685789]
Coordinates
chr17:73330977-73333506:-
Coord C1 exon
chr17:73333498-73333506
Coord A exon
chr17:73331180-73333497
Coord C2 exon
chr17:73330977-73331179
Length
2318 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
AATAATCTCATTTCTTCTAGTTC
3' ss Score
7.23
Exon sequences
Seq C1 exon
GTGCCCCAG
Seq A exon
GTATGTCTCACTGATGTCTTCATTGACTTCTCACACCTCTGACGCTGCCCTTTGGTAAACCATTATATCTTGTCCAACTGTTGAACCTACCCACCTACCCAGGTCTACAAATCCATTCTTGCTGCATCTTGAATCAGCAGTCATCTTAGTGTCTCTAAAGAGATCAACAAACTGGGATTTGGCATGGAGGGTTTGGCATCTTGGTTATATGGTTGGACCTCGCAGGATTCTCTCTTTAATATCCAAGTTGCAGGGTGCTGCAACTGTAAAAGCACCCTGATGCATTTGGTTCTCATAGAGAAGCTTGGTCCAGCTGGTTCCCATGCACTGAAGATGAGGGTAATAGTACAGAGTAAATAGGAAGGACCTTCAGATGCTTGAATTAGTCCCCAAACTACCATAAGCTGGTGCTCACAGGCTTCATACAGCTTCAAGGCATACCCCTACCTCTTCTCATAAGCAAATAGATATCTTTTTTATTTTAATCCAATAACCTGACCTGACCTGATCAAGTATCGATTAGAGAAAAAAAGTCTGAAGACTCTAAGGAAGGATGGAAAGGGACAATGGAGTTCAGAGGGTCTGACCTCACAGGCACAGACCTGGCCTTGCAATGTCTATGAACTCTGAGTACCTTCCTCTACTGCCAAGAGGAAAATACAGTGTATGGAGAAAGTACAGGATGTGGTCATAGCCAGCAGATGGTAACAGTGCCCAACCCCAAAGCTACTACTACAAGGCCCCAAGAAATAGACAATGTCTAGAGTAGCCAATCCAAGAGCAGAAGGACTCAAAACTCCATACGGAAAGTGGGCAGCAAAGAGGTCTGTCCCTTAGTCATGACTCAGCCACAAAGCTGGGACTTAGAATCTGCTTAGGTCCCTGGTACCCCCACCATCAGAAGAAAACTTAGAAGGGCTCTAAGGGAAGCTCTCAAATGAGTGGGATGGATCCAATCCAGTTCTCTGAGCTGGAGAACACAACACAGCGGGGATCTGAGCCAGAAGAGGGCAAAAACTCTACCATTAGAGGGACTACAGGGTCAGCTCTGTAGCTGCGTGGCCCTGAATCTGCATGATGCAGCCCCTCTAAGTCCCGGGCCAAGGTCTCCTTTCACTCCCTGGTCACAGTGCTCACTGTCACTGAGCAAGCCCACTCTGAACAGGGCTTTAAAAGGGGGGGAGGGTGATGGGGGTGGGGAGCAGCAGGTAAGTAGGGCCATCGAACTTAGCTTGTAGGAGGAAGGCTGTTCACACACCTCTGCACACACATTTATACCTAGTGCCAGAGGGCATAGCTGCTCTTTTGGAAAAGAACCAGCCCTAACATCCATTACTGCTGTCAAAAGGACACAAGCAAACCAGGTCCCCAGTCCACAGTGGCTGCTTTTGAAAGAAGCAGAACTGCAGTGGGGGGTCCCATTTGCCCTCTGCTGTACTCCCAGGACAGTGGCCTAGTCCTTGCCTAAGTCTCATTGCTATCTCCTGATAGAAACTTCCCCATTGCCCCTGTTCTTCCCCCAAGGCAGAGCCTATCAATAACCATTTCATGCTGCATAACCATTCTAAATGGAATCGCCATGCTCATATGTAGTAGGAAAATTTGTTTAGTAAGGGGTTTTTATTATATAATATGTATGTGACATCTGGTAATAGGAAATGCGTTATATTTATTGTTTTATCTGTAAGAAAATTTGAAATAAAAGGGAAAATGATTGAGACCCATTATTTTCCAATGAGAAGGAATCCCGGGGCTCTTGCTGGGGAGATGAAAGCGAGGGAGAGGAGAAAATTCAACCCTGCAGTTGTATGGCAGCATATGATTAAAGGTTTAGTGGAGACATAGCTTTGGGGACGCCAGAAGAAATTCAACACTGGAACAATGTCACTAGTCCCCATGTCTTGTTTGTGCATAAATAAGAGAGAAAACAAGAACCCCAGGATGCTATTAGATTAGTGAGATAAAATCACCTGTCAAATTTTTGCGCATCCACTGTAGTGTCTAGAGTCTGCCAACTCCAGCCTTCTGACATTGCAACATGATTTTGTCATCTACAAATGTGTCAGGCCACATCCATAGCTGGGACTCACGTGGCCACAGATAACGGGCAGGGTGGGACACACCTGGCAGATAAGATACTGTTGTGTGTGTGTGGGGGGGGGGGGGACGTGGTATTTTAAATTTTGAATCTGAGTCAGCACTATGTCCTTTTCCGGAGCTTATAATGCTGTTCCGGTGAGCAGAGAAGGGCATAGAAGGGAATTTCCTGTCCTAGTGGTATAGAAGGGGCTTTCTCATAATAATCTCATTTCTTCTAG
Seq C2 exon
TTCCAGAATGTCCAGGGAAGATTGCCTCCTGCATTTTTCTCCCCATTTAGAAGTGCTGCCCAAGGCACAAAGTATGTGTCCAAGTGCAACTTCACAAAGTCCTTCCACCTGAATCCTGGTACCTATGTAGTGGTTACCACAGCAAACGGAAAAGAAGTGGAATTCCTACTCCGAATATTCCTCAAAATGCCAGACAAGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000043705:ENSMUST00000095208:12
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(1.5=100)
A:
NA
C2:
PF0106717=Calpain_III=FE(48.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
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
- 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