MmuINT0028774 @ mm10
Intron Retention
Gene
ENSMUSG00000079110 | Capn3
Description
calpain 3 [Source:MGI Symbol;Acc:MGI:107437]
Coordinates
chr2:120489668-120491031:+
Coord C1 exon
chr2:120489668-120489753
Coord A exon
chr2:120489754-120490953
Coord C2 exon
chr2:120490954-120491031
Length
1200 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
TTCCCCCATTTTCCCACCAGTTG
3' ss Score
9.66
Exon sequences
Seq C1 exon
GCCCTGTTCAAAGGTGAGAAGGTGAAGTTGGTGCGGCTGCGGAACCCCTGGGGCCAGGTGGAGTGGAACGGCTCTTGGAGTGATGG
Seq A exon
GTGAGGCAGTCCACGGTCAACAGAGCTTGGGGCCACACTGGGGTGGGTACCAAACCATGAGAGTACTGTTGATACTGGTGGAAGATCACTCTCAAACCAGTGACCTACAGAGAAGGACACTGGTGTGGGTTCCCCAAAAGGGCAGGAGGTGAAGGCAGGGGAGCCAGGGACTCAGTGAACATGATGGTGCTTATATTCTTGAGGAAAGGTTCTAGAAGCCTCCATCAGAGTTCTGGACTAAACAGGCAATTCCCTTCTTAGTATCTATCCCCTTTACCTCACCTACAAAATGGAAGCAGTACCTACAGTGTCCAAATGACTCTTATGAGGGGTAAAGGTGACAGCTGGGGAAAGCTCTTAACTGAGACCAAAAGAGCCTCTCTTTTGGAGAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAGAGAGAGAGAGAGAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAGGAAAGAGGGAGGGAAAGAAAGAGAGAAAGAGAGAAAGAAAGAAAGAGAGAGAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAGGAAAGAGGGAGGGAAAGAAAGAGAGAAAGAGAGAAAGAAAGAAAGAGAGAAAGAAAGAAAGAAAGAAAGAAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAAAAAGAAAGAAAGAAAGGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGAGTGCTTAGCTGTTTTCCTGTTACATGATCTTTTCTTAGCAACTCCGTGGGCAGCAAGCTAACAGTTTCGACGAGTTAGTTCATGAAGTCCTCATAGCTCCTAGACAGATGATGTAGTCGGTTCCCTTCTGCAGCGAGGAAGTCGAAGCTGACAGGTCAAGTGACATGTCTAAGGATATACAGCTGTCTGATGCAGATTCAAGCTCTTAATGAGGAGGCTAGAAGATTCAGCCAGAGACAGCCAAGCCCTTGTGAACCCACTCGAGGGGACTGGTCTTAGAACTTTCTTAATTCCCCCATTTTCCCACCAG
Seq C2 exon
TTGGAAGGACTGGAGCTTTGTAGACAAAGATGAGAAGGCCCGTCTACAGCACCAGGTTACTGAGGATGGAGAGTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079110:ENSMUST00000028749:8
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=FE(18.9=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(17.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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