MmuINT0028844 @ mm10
Intron Retention
Gene
ENSMUSG00000031981 | Capn9
Description
calpain 9 [Source:MGI Symbol;Acc:MGI:1920897]
Coordinates
chr8:124607955-124609173:+
Coord C1 exon
chr8:124607955-124607991
Coord A exon
chr8:124607992-124609092
Coord C2 exon
chr8:124609093-124609173
Length
1101 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
ACCTTGTTTGGCTCTTTCAGCTT
3' ss Score
9.46
Exon sequences
Seq C1 exon
GGACCTGGACGAGAACATAGACATTGACCTTCCTGAG
Seq A exon
GTGAGTCCTCTGCTGTCGTCACAGGGGATGGGGTTCAGCTGAAGGCTCTAGAATTCACAATTGAATTCACGGTTGGGCAGTGGTGGTGCACACCTTTAATCCCAGCACTGGGGAGGTGGAGACAGGTAAATCTCTATTAGTTCAAAGCTAGCCTGATCTGCAGAGTGAGTGCCTGGACAGCTAGAGTTACACAGAGAAAACCTGCCTTGAAAAAAATGAAATGGGGAAAATCAAATTCAGGAGAAGACAGCTCATAGCCCAGTAAGCACCCTGGCTGGTTCAAACCCGGACCCCACAGCTTCTGTTTTTCAGCCCACACAAACCATTGTGGAAATCCAAAAGCCGTATGATGAATATTGAATATTCGAGGGGTGGGGGAAACATGCTCAGTGCTTCTGAAACAGTCAGAGCTTCCTGGGCAGCAGAAACCTGCTGGGGAAGAGCCTGCTGCTCTGTGCTGCCCCCTAGGGCCGCAGCTTATGAATGGGCCAAAATCTACAGAAAACAGAACACTGTTGTACTGAGCCCTTTGCCTGCTCTGGGTGCTGGAGACGGACTCTTGGAAGGCAACGCTCTATCAAGAAAGATGATGGATCAGGAGATGAGGCTGGAGCATGGCAGCCCTGTGCCAAGCTATCTGTCAGGCCCCGGCACCCCTAGCCTTCTCATTCACATCAAGTGACAGACAGAGTTCCCGCTCTGGCCAACGGACATGTGGTCACTCAAGCTGAACTTGCGGTCCCCAAGATGTAACCAAGCTGTTCATCTAGCTCTGAGAAATCAGGAAATGCCTTATGAGCCTGACAGGCCAGCTCTGTCTGCATAACTGGAAGGCTCCTGCTTTAACCCCCGAGTGAAAAATCTCCATTGCAGTTTGCTACTGACCATCCTGTTCTGTGCGGAGCATTTCCCATGTGTGGGGATTGAACCAGGCAGGGCCGCCCACATGCTAGGGAAGACTTCTGCTGGCTTTTCCTTCAGGGACAGCGTGGTGTCCAGAGTGGGCTCTTCTTTTCTGTTACTTATGTGAGAAAGCATGTGTTGGATTTCGCTCTGTGAGCCCTTCTCTGCCCTTTACACAACCTTGTTTGGCTCTTTCAG
Seq C2 exon
CTTCCAAAGCCGACTCCACAGGAGGAGGAAACAGAAGAGGAACAGCAGTTCCGGGCCCTGTTCCAGCGAGTTGCTGGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031981:ENSMUST00000093033:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.308 A=NA C2=0.519
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=PD(0.1=0.0)
A:
NA
C2:
PF138331=EF-hand_8=PU(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