MmuINT0028636 @ mm10
Intron Retention
Gene
ENSMUSG00000024942 | Capn1
Description
calpain 1 [Source:MGI Symbol;Acc:MGI:88263]
Coordinates
chr19:5997691-6007412:-
Coord C1 exon
chr19:6007252-6007412
Coord A exon
chr19:5997867-6007251
Coord C2 exon
chr19:5997691-5997866
Length
9385 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CCTCTCCTCTCCTCCTGCAGCTA
3' ss Score
11.95
Exon sequences
Seq C1 exon
GATGTCGTTCCGAGACTTCATCCGTGAATTCACCAAACTGGAAATCTGCAACCTTACACCGGACGCCCTTAAGAGCAGGACCCTCCGGAATTGGAATACCACATTTTACGAGGGCACCTGGCGTCGGGGAAGCACCGCTGGAGGCTGCAGGAACTACCCAG
Seq A exon
GTGAGTGGTTGGGAGACAGGGCAGGGGGGTGAGCAGGGCCACCTGGCTGAGCCTGTTGTGTTCCTTGGGAGACAAATAGTCATGATTGAATGCTGCTTATCTTTATGGATGGTAATAAAGGGGCTTGCTAGACTGTCTGGGGCCCGGGGAAGAAAGCCTTGTTGTTTATCCAAACACCTGCCCATTCATTCCAGCACCTTCTTACCCACTGACCCGCTGTCCGCCTACCTTCCCCTCTCACAAATGGTGACTGTCACTACTGTGGAATGGCCTCTCTATGCCCCCACCCCCAGCTCCCCTCAACTTTTTTCTGTACTCCAGCTCTACTCTGCCCCACTGAAAAGAATTCTGGGCCTGTCACACTCACTGCCCCTGCCCAGGCCTCAGCCCACGGAATTAACCGACCTGCTGACACCTCCCATTTTAATTACTCTCTCATTTGGCTCTCTGTCTGTCTGTCTGTCTGTCTGTCTCTCTGTCTCCCCCTCTGTTTCTCTCTTGTTATCATTTTTTGGTTTGTTTTGATTTTTTTTTAGATTTATTTATTTGTTTATTTATTTATTTATTTTATGTATGTGAGTACACTGTAGCTGTACAGATGGTTGTGAGCCTTCATGTATTGTTGGGAATTGAATTTCAGGACCTCTGCTCGCTCTGGTCAACCCCACTCGCTCCGGCCCAAAGATTTATTTATTATTATACATAAGTACACTGTAGCTGTCTTCTGACACACCAGAAGGGGACATCAGATCTCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTAGGATTTGAACTAAGGACCTTTGGAAGAGCAGTTGGTGCTCTTAACCACTGAGCCATCTCTCCAGCCCCAGGTACCGAGTTCAAATCCTAGCAGCCACAACCATCTGTAACAAAATCTGATGCCCTGATGCCCTCTTCTGGAGTGTCTGAAGACAGCTACAGTGTACTTACATATAATAAATATATTTTTTTAAAGATTTATTTATTTATTTATTTAAAGTACACTGTAGCTGTCCTCAGACATTCCAGAAGAGGGAGTCAGATCTCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCCTGACCTTCGGAAGAGCAGTCGGGTGCTCTTACCCACTGAGCCATCTCACCAGCCCAATAAATAAATTTTTAAAAAGTATTACATTTATATATCTTATGGGGGTATGTGTGGGCGTGCACGTGTGCACATGCCACAGTGTGTGTGTGTGTGGAGGCCAGAGGACAATTTTTAGGGCTGTTTCTCACCATGTAGGTCCTAGAGATCTAACTGAGGTTGTGAGGCTTGCTGGCCAGCGCCTTTATCCACTGAGCCGTCCTGCCAGCCCTCTGTGCTTTCATCTTGACCTTGCAAACATCCGCTTCCCTGGTTTCTCCTTCTGTCACCCAGCACAACCGCTATCCCCACTGAAAGCAGCTTTGTACTGACTCACAACCGCTAAATGTAGCTGGCGAGAAATCACACAACGAAGGCTGCTTTCCTTGTAAATCCACAGCCACAAACCTCGAGTAAGCAGCTTGTGTGGTCCCCACCATTCCACTAGGAACCCTCCGCTCATGCCTGTCATTCCAGTGCTTGGGAAATAGGAGGAGGACCGGGAGGTCGAAGCCAGCTTTGGCTATAGAGCAAGTCTGAGGCCAGCCTGGGCTGCATGAAGCCCTGTCAGAAAAGAGAGGAAGAGGGAGGAATGAATGGGGGAAGAGAAGAGGGGAGAGAGTCAGTGTTACATAGGATACCTCGGGTGCCCACCTCTGCCTGTCTGTCCCCAGTGCATGTGTGTGCTCCTGTGTCTCCAGTGCATGTGTGTGCTCCTGTGTCTGCAGTGCATGTGTGTGCTCCTGTGTCTGCAGTGCATGTGTGTGCTCCTGTGTCTGCAGTGCATGTGTGTGCTCCTGTGTCTGCAGTGCATGTGTGTGCTCCTGTGTCTGCAGTGCATGTGTGTGCTCCTGTGTCTCCAGTGCATGTGTGTGCTCCTGTGTCTGCAGTGCATGTGTGTGCTCCTGTGTCTGCAGTGCATGTGTGTGCTCCTGTGTCTGCAGTGCATGTGTGTGCTCCTGTGTCTGCAGTGCATGTGTGTGCTCCTGTGTCTCCAGTGCATGTGTGTGCTCCTGTGTCTCCAGTGCATGTGTGTGCTCCTGTGTCTGCACTGGTTCCGCTTGGGACAGTGGCAGAAGTGTCCGGGCTGCCGGGGAGGCCTAGCATCCCAGATCCTGCTCTCTCTTCCCTGACAGCACCTTGCTTCTTCACCTCTCCTCTCATCCTTATGGAAAATCCCATCTTAGAACATGTGGCCCTCTCTTGACCTCCTCCTCCCATCCCAGGCCACCTCCCTCCTCCGCTCAGGGATTGGTTGCCAAGCTGCCCTTTCCTTCCTGGTGGTGTTGACCGAGTTGATTCACTGCTGTGCTGGGCTCCTGCCTGTGTCCCCCAGTGCTGGGCTCCTGCCTGGGTCCCCCTGTGCTGGGCTCCTGCCTGGGTCCCCCTGTGCTGGGCTCCTGCCTGGGTCCCCCTGTGCTGGGCTCCTGCCTGGGTCCTCCTATGCTGGGCTCCTGCCTGGGTCCCCCTGTGCTGGGCTCCTGCCTGGGTCCCCCTGAGCTGGGCTCCTGCCTGTGTCCCCCTGAGCTGGGCTTCTGCCTGGGTCCCCCTGTGCTGGGCTCCTGCCTTGTCCCCATGTGCTGGGCTCCTGCCTTGTCCCCCTGTGCTGGGCTCCTGCCTGGGTCCCCCTGTGCTGGGCTCCTGCCTGGGTCCCCCTGTGCTGGGCTCCTGCCTGGGTCCCCCTGTGCTGGGCTCCTGCCTGGGTCCCCCTGTGCTGGGCTCCTGCCTGGGTCCCCCTGTGCTGGGCTCCTGCCTGGGTCCCCCTGAGCTGGGCTCCTGCCTGTGTCCCCCTGAGCTGGGCTTCTGCCTGGGTCCCCCTGTGCTGGGCTCCTGCCTTGTCCCCATGTGCTGGGCTCCTGCCTGGGTCCCCCTGTGCTGGGCTCCTGCCTTGTCCCCCTGTGCTGGGCTCCTGCCTGGGTCCCCCTGTGCTGGGCTCCTGCCTCGGTCCCCCTGTGCTGGGCTCCTGCCTTGTCCCCCCCTGTGCTGGGCTCCTGCCTTGTCCCCCTGTGCTGGGCTCCTGCCTTGTCCCCCTGTGCTGGACTCCTGCCTGTGTCCCCCTGTGCTGGGCTCCTGCCTGTGTTCTCATCGTTGCTTTTCAGAAGCATTCTTCTTCCCTCTTCAGCTTTTCTCCAATCCTGTAAGAACCAGTTTCCTGTACCAACTGAGTGGCCTGTGTTTCCCTCTGTGGCCAGTGTGCAGTTCCTGTGTGTTTTGGGTATTTCCGGCCCTAGGCTACACTTCTGCCAATTGTTCATTGATGTGATTGTTATGGATATATTTGTTTGTTTGTTTGTGGTTTTCAAGACAGGGTTTCTCTATATATCTATCCTTGGCTGTCCTGGAACTCACTCTATAGACCAGGGTGACCTCGAACTCAGAAATCCATCTGCCTCTGCCTCTTGAGTGCTGGGATTAAAGGTGTGTGCCACCATTGCCTGGCGCTGTTATGGATTTATAAGAAGTCTTGTCATTAGACAAGGTGGATTCCTTCTTCAGGAGCATCTTTGAAATTTTTTTAAGATTTATTTTTAAATGTATTCATTTTAATGTATGTATAATGGTATTTTGCCTACATGGATGTCTGTGTACTACATGCATTCCTGGGTCCCATGAAGGTCAAAAGAGGGCATCAGATGCCCTAGAACTGGACTTACAGAATTTGTGAGCCACCAAATGGGTGCTGGGAATCTAACCGCATCCTCTGCACGAACAGTATGCACACCATGAGCAGTCTTTCAGCCCCATTTAGCTCCGCCCCCAGAGGAAGGGAGACAGAGTCAGGAAGCCCAAGTTCTATAGGATTCAAATTTCACTAGAACTCTGCAGCCAAGGATGACCTTGTTCTCTTCCTCCTCCTCCTTCTTCTTTTTTTTTTAAATAGATTTATTTTATGTATATGGGTACACTGTAGCTGTCTTCAGACACAACAGAAGAAGGCATCGGATCCCATTACAGATGGTTGTGAACCACTATATGGTTGCTGGGAATTGAACTCAGGACTTCTGGAAGAGTAGTCAGTGTTCTTAACCACTGAGTCATCTCTCCAGCCCCGACCTTGTACTTCTGACTCTTCTGCCTCAACCTTCTCTTGCCTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCTTTCCTTCTTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTCCTTCCTTTCTTTCTTCCTTTCTTTCTTGGTTTTTCAAGACAGGGTTTCTCTGTGCAGCTCTGGCTGTCTTGGAACTTGCTGTGTAGACCAGGCTGGCTTTGAACTCAGAGATCTGCCTGCCTCTGCCTGCTGAATGCTGGAATTAAAGGCAAGAGGCACTGCTGCCCAGGCAATCTGGGGATTTGCAATGTGCGTTCTGGGAATTGAACTTATGTCCTGTGGTTTCAGGGCAAGCTTTGCCAACTGAGCTATCTTCTCAGCCCTTTACTCTGGCCTTTATAGCTTTTTAGAGAAGATTATAATGTTTAAAGAGTTTTGAGATTTAGTATTTGGCACACCATCCTTCCACTGTAAGCACAGACTGACTTACCAAAATGCTTGTATCAGAAGTAGCTCAAGCGTTTAGATGCTTTTAGATTTTGACATATTTATATGTGTATATAGTAAGATATCTTTTTATTTCCATTTTATGTGTATGAGTGTTTTCCTGTATCTATTTCTGTGTACCACATGTATGCTGGGTCTGTGGAGAGCAGAAGAGGTCATCTGTTTCCCTGGGACTGGAGTTACAGTTGTGCGCCACCATGTAAGGTGTGGGAATTGAACCCGAATCTTCTGAAAGAGCAGTCATCATTCTTTTTTTTTTTTTTTTTTTTTTTAGATTTATTTATTTATTATATGTATAGCTGTCTTCAGACACTCCAGAAGAGGGAGTCAGATCTCATTACGGGTGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCCGGACCTTCAGAAGAGCAGTCGGGTGCTCTTACCTGCTGAGCCATCTCACCAGCCCGCAGTCATCATTCTTAACCACTGAGCCGGTTCTCCAGGCCCCAAATAGTTTTAAAAATAACATTTATTTAATCAGTATATGTGTGTGTGTGATAGGTCAGAAGACAATCTGCAGGAGTCCTTTCCTTCCAATGTATGGGTTCCAGGATCAAACTCAGGTTGTTGCATTTGGTGGCAAAACTCCTTTACCCACAGAGCCATCTTCCAGCCCAGTATCTACTTTTAAAATCTTGTCTCTCAGCTGAATGTGGTGGCGCATGCCTTTGATCCCAGCCCTTGGCAGGCAGAGACAAGTGGCCTCTGAGTTAGAAGCCAGCCTGTGCTACAGAGTAAATTCAGGACAGACAGGGATACACAGAGAAACCCTGTCAGGGGAAAAAAAAAACAGACAAAAACAAACAAATACTTTCTTACCTCTTGAATTAATAATTAATATTTATGGGTACAATAAGGCACAGTTGCCTCTTTAAATGTATTTTGTAACCAGATTGACTTCTTTGTAGGCAATCAGATGATAATTCACTTGTTTCTTCCTGTCCCATTCTTCTTCCAACTTTTGTTACTTTTTCCTGCCTAGGACACTGGCTAGAAGAGCAATTAGGAGCCACCACTAACGGAGTCCTGGCTCTCCTTGTCTTTTTGTTGCTTAAGTTTCTAATGTTTATTTACTTTTGGGCCAAGGGGCTCACCCACAATGTCAAAGTATAACTTGTAAGAGTAGGTTCTCAGCTGGGCGTGGTGGCACACGCCTTTAATCCCAGCACTCGGGAGGCAGAGGCAGGTGGATTTCTGAGTTTGAGGCCAACCTGGTCTATAGAGTGAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTGGAAAAACAAAACAAAACAAAACAAAAGAGTAGGTTCTCTTCTTTCCCGGGACTTGGGGATCGAACTCAGATCATCACGCTTGACCTCATGCACCTGTGGCTCACCTTCCCACGCCCAGTAATAAGTGTTTGTTGTAGGTTTCATTGTTGCAAACTTTGGGGGGAGTTGGGCAGTGAAAAGCGTGTGTGGTTCTGTTCTGTGGTGACAGAGATCAAATCCAGGGACTAAGCAAGCGATCTGCCACAGAGCCACATCCCTACCTGTCCATCATCCCTTCCCTTGGTTTTTGTTTTTTCAAAAAAAAAAAAAAGTTTCTATGGTCTGGAATTCATGATTGTCCTTCCTCTGCCTCCCAAGTGCCAAGTTATAGGTCATGCATTGCCATGCATGGTTTATAAGGTGCTGAGGTGCAGACCCAACGCTTTGTACAGTGGGTGTTCTAGGAGGCAAACACTTCACCAACTGAGCTACATCTCCCACCTTGATAAAAGTTTTCCTTTAGTTTTGTATTTTGTGTATGTGGGTAGGTGTTTGTGTACTCAATATAAGCCTGGTGCCCATGGAGGTCAGAATCGGGCAACAGATCCCCTGGAACTGGAGTTACAGACAGGTGTGAGTCACCATGTAGCTGCTGAGAATCAAACCTAGGAGCTTTGGAAGAGCAGCCAGTGGCCATCTCTCCAGCCCTTTGACTGAAATTTCATATGGCAGTTTCTTTTTCTTTCATTTTTGTCCTTTTTGTTGTTGTTGATGGTGGTGGTGGTGGTGGCGGCTGCTGCTGCGGCAGTGGTCCTAGTATTTTATGGGACCTTGTTCCTTTGTGTAGCCCTGGCTGTCCTGGAACTCTTTCTGTAGACTGGGCTAGCCTTAAACTCAGAGAGATCCGCCTGCCTCTGCCTCCCCAGTGCTGGGATTAAAGGCAAGTGCCACCACTGCCCGGCTCAGCTCCTGAGTGAGCTCTGCCTATTCATTCTAAAACAGCCCCTTTCTCTGTGTTTTCTTGGAGAGTTTGCATAAGGAGAGATGACTCATTGGGTAGAATGTCTGGCTGCCGGACCTGTCTTTCCTCTTCTATTTCCAGCACCTAGGGCCCTGTGTGTACAGAACAAGCGCTCTATGCTGAGATGCACCCCCAGCAGGCGCCCCCTAGTTGTGTGTGTATGTATGTGTGTATGTATGTATGTATGTATGTATTTATTTGAAGTGTATGAGTGTTTTGTCTGTATAGCTATCTGATAGGAACATGCTTGGCTGGTTCCTACAGAAGCTAGACTCGCACAGCAGAGCCCCTGAAACTGGAGTTACAGACCATTATAAGCTTCCATGTGGGTGCTGGGAACTGAACCCTGGTCCTCTGGAAGAGCCGCACGCCAGTGCTCTTAATTGCCCAGCCATCTCTCTAGCCCCATAAGAGACTTTATAATAATCTAGTTTGATTTTCTAAATGACATTTTTCTTTGAAGTGCTAGGGGTTCATGTGTCACTGAAGCACAGGGAGGTCAGAGGGTGGCTTTGAGGGACTCAGTTTTTTTCTTCTACCTTGTGGATCCTAGGGGTCAAAGCTCCTACGATCCACCTTTACCTGCTGACCCACCGCACCAGCTTAACACATTAATGTGTATTTCAGTTCATTTACTTCCTTTCTTTCTTCCCTCCCTCCTTCCTCTTTTTTTTTTTAAGATTTATTTATTATTTTATCTAAGTATACTGTAGTTGTCTTCAGACACCCCAGAAGAGGGCATCAGATCTCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTGGAACTCAGGACCTTTGGAAGAGCAGAGAGTGCTCTTAACTACTGTGCCATCTATCCAGCCCCTTTCTTTCTTCCTTTCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCTTTTAATAGGGTCTTTTACTCTGCAATCCAGGTTAGCCTGAAATTCACAGCCATCCTCATATCTAGTAAATTTTCCTCACTGTGGGTTGAACATCTTGAGAGTACACTCTATGTGTTTTGTTTCATTTTGTTTCATTTTGTTTCATTGAGACACAGGGTCTCCTGAAGCCCAGGCCAGCCTTGAGCTGGCTGTGTAGCTGAGGTTGGCCTCGGCCTCCTCTTCCTGTCTCTACCCACAGGGATCACAGACTCAAGCCACCAGCCTGGCCTTACTTTTTTTGTGTTATAGGTGTTAGTTTTTCAAGACGTTGACTCAGACCTAGGGTCTCACATGTATCACAAAGGCTCTGTCATTGAGCCTGGCCTGGTGTGCAGTGCTGTGCTTAGCTGATCTGAACAATGCAGGATTTTAGGGTGTCTCCCTTGGTTTGCCCTTCTCTTTATGAACAATTTTTGCTTGCCATAAGTTAAATGTTATCGTTATCATGTGAGCTTGGATTCTCTGCAGAGTAGTGACAACTGTCACATTCTCAGACCTGTCATCTGGGCTCATATTCTCTACCTAAAATGTCTTTTTAAAAAGTTTTTGTTGGGGAGCTGGAGAGATGGCTCAGTGGTTAAGAGTACCTACTGTACTTCTGAAGGTCCTGAGTTCAATTCCCAGCAACCACATGGTGGCTCACAACCATCTGCAATGGGATCTGATACCCACTTCTGGTGCATCTGAAGACAGCTACAGTGTACTTAGATACAATAATAAATAAATTTTTAAAAAAAGTTTTTGTTGGGCTGGAGAGATGGCTCATTGGTTAAGAAAGCACACTGCTCTTCCAAGAGACTCCAGTTTAGATCCCTGTACATTGGTCAGTGTCTCACAGAGCCTGTACCTCCAGCTCCAGGCGATCTCACGCCCTCTTCTGCCCTCTGTGGGTACTGCACTCGTGTGCACATACCCACCCCTACATGCATCATTAGAAACAAGACAAATGTGTATGTGTGTGTGCATATGTGTTCATATGTGCCATCATGACCAGCCTGGGTGAATGACTGGTCTAAGGCACCAGACTCAAAGTTTCTTCTTGTAAAGGCACTGAGAAAACCAGGCACTGGCTACTCCACTAGGGCTCAGCTTGCTGCCACAATCCCAGGTCAACTAGCTTGCTTCTTTTTAGAACCCAGGACCTTGAGCACGCCAGTGCTCATTGAGTTATCATAAATCTGCACCTCCTCCAGCTTACTTCTTTGTAATTATCCTGATAATTCACCTACTGCCCCTTCTGGAAGAGGCGTCTCGTCCATCTGCTTTCCTGTCTTCTGACACTCACAGCGCGTCTGTAACCACAGTATTGAATGAATAGGAGTGAGGTGTAAGGGAGGGTTGAGAAGCCCTGCCCTGCTTGCCTCTGATCGTCCTCTCCTCTCCTCCTGCAG
Seq C2 exon
CTACCTTCTGGGTAAACCCCCAGTTCAAGATCCGGTTGGAGGAGGTGGATGACGCAGACGACTATGACAACCGGGAGTCGGGCTGCAGCTTCTTGCTGGCCCTCATGCAGAAACACCGCCGCAGGGAGCGTCGCTTTGGCCGGGACATGGAGACCATCGGTTTTGCAGTGTACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024942:ENSMUST00000025891:10
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:
PF0064816=Peptidase_C2=PD(6.3=34.5),PF0106717=Calpain_III=PU(15.3=43.6)
A:
NA
C2:
PF0106717=Calpain_III=FE(36.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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