MmuINT0028843 @ mm10
Intron Retention
Gene
ENSMUSG00000031981 | Capn9
Description
calpain 9 [Source:MGI Symbol;Acc:MGI:1920897]
Coordinates
chr8:124605696-124607991:+
Coord C1 exon
chr8:124605696-124605904
Coord A exon
chr8:124605905-124607954
Coord C2 exon
chr8:124607955-124607991
Length
2050 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGA
5' ss Score
8.51
3' ss Seq
TGTGCTTTCTGCCACTGCAGGGA
3' ss Score
8.59
Exon sequences
Seq C1 exon
TGCCCAGACAAGGACGGACACCTGAGTAGGGACTTTTTCAGGTACCATGCCTCCCTGGCCCGAAGCAAGACGTTCATCAACTTGAGAGAAGTCTCAGAGCGATTCCAGCTGCCCCCGGGAGACTATATCCTCATCCCCAGCACCTTTGAGCCGCATCAGGAGGCCGACTTCTGCCTGAGAATCTTCTCTGAGAAGAGAGCTGTGACTCG
Seq A exon
GTGAGAGAGCCCATCTTTCTCAGTGTGCACGGTACCCGAAAGGGCCACTGGGGAGTCTAGCCGAGCTAGAACCCCATCCTCGCCTCCCATCACCTGCTCAGGAAGTGGAATGGGAAGAGAGGCTTGCTTCCCCGAGATCTTCAGAGCCCTTCTCTTCAGAGCACACCAGTGATGACCCATCTGCTCCAGGAGTCCTGCTCACTGGGCCTCTTGGATGTAGCCCTTCATTTCTCAGACCTGACTCTTAAGAAGCTTCTAGAGTCAGGGGCTCATATGGGGATTCTAGGCATGCTTACTCACATGGCAGGGAGGTGACCATTGGAAGTTTCCCAAATCACACCACCTTTCAGCTCCCTGATGAGTGTCAACCATTTCACACTGCCACCTCACACCATGGAGTGTTTTGTTTTGTTTTGTTTTGTTTTGTTTTGTTTTGTTTTGTTTTGAAGTCTTTTTAAATGAAATCCTCCTGTTGCAAACATTTCCCACTGCTGTCAATGACCTTGGATATGGCACAGGGGAAATGGTTCATGGTATAAGGACTCACTTTTTAATGTAAGGAAAGCCAGCCAGAGCAGGAGTTCTCAACCTGAGTCATGCACCCTTCGGGTCATGAATGACCCTTTCACAGGGGTCACCTAAGATCACATAGGAAACATAGATCATAACAGTAGCAAAATTACAGTTATAAAGAAGCAACGAAAATAATTTTATGTTTGGGGGTCACCAGAACCTGAGAAAATGTATTAAAAGGTTACAGCATTAGGGAGGTTGAAAACCATTGAGCTAGAGAATTCCAGATACAGCCCAAGAAGAGACCACTCACAGATCTGCCAAGAGGTTATCCGTTCCAGTTTACCTTCCGTGTAGTGCGGCAGAACGGGACTGGCGGTGGGTAATGAAGGGTCCCTGGTTGTGAAGCAGGTTCAGTTGAGTGTTTGGGGTTCTGAGTGCAGGCACCATCAACAGAAGCAATGAAGTCTGAACATTCCTCCCGCTTCCCCTGGATGCTGATACACATCGTGCGTGGATTCCTCAGCACCCATTCTCACAGAACACCTACATAATCCCAAGATGACCCTATCTCGCAAGTGTGCAGTACAAAACAGAGCCAGGTGACACCAACCGTTGTTCTCAACAAAATCGCAAACGTTTGATTTTACCAATAAAGACTTGGGAGGCAGATGCTAGCTCAGAGAGGCAGAGAAAGCATCCAGCCAACCTTCCTCCTTAGCCAGTGTCTCAGAAGGGAAAGCAAGGCTCTCCTCCATGCTGTCTCAAAAACCCTTCAAACCGAATGTCCCTCCCTCCTGCTTCCTGTACTTCTCTCCGTTTGTCCTCCCAACTTCCCCTTACTCTCTATGGCTTTTTTTCCGTATTCCCTGTCAACCGGTCACTGGCTTCACCTCTTGACCTATGGTTAACTTTATTTAATCCTGTTTAAAAAAAAAAAAAAAGAACAGAAAGCTCTTGGATTAAAGGTGTACGCTAGGGCTGAGCCATCCCACAACTAGAAACAATTTTTTCCAATAAATAATGCAGTCTTGGGATTCACAGTGTAGTCAAATATCCTGCAACAACCAACCCTAACCCTCTTGCTTTCTATCCCATCAGAGGACTGAAAGTTGAGCCCTGATGGTCCCGCTGTGAAGCAGGGCCCAAGCCAGCACTGTGTTCACTTCAGAGGGGACACACCAAGCTGTGTCCGTTGGTGTGGCTCTCAAGCAGACCCCTAACCATCAGCATTCCTAGAGGGATAATGAGTACCCTGTTCAGAGTGCGTCAGGAAAAGAGGGGGCACTGATATAGTCTCTGGCTTTCAAGCTCTGGATTGCAAAGTTCCTTGGGCTAGGGTCACACCAGTCTCCCTCTCTCTGGCACACTGGACAGGTTTGAAAGGCTAGGGGGCAGGTATTGGCACAAGGGGGGTCGGGGGGGGGGAGTGAGTGAATGACACTGAACAGGCTCTGACAGGCAAGACCCTTTCTGTAGCTCTAGTCCAGTGAGGTGCACATCTTCATCTGAGACTGTGTGCTTTCTGCCACTGCAG
Seq C2 exon
GGACCTGGACGAGAACATAGACATTGACCTTCCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031981:ENSMUST00000093033:11
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=0.308
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=FE(46.9=100)
A:
NA
C2:
PF0106717=Calpain_III=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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