MmuINT0028713 @ mm9
Intron Retention
Gene
ENSMUSG00000043705 | Capn13
Description
calpain 13 [Source:MGI Symbol;Acc:MGI:2685789]
Coordinates
chr17:73678962-73679432:-
Coord C1 exon
chr17:73679396-73679432
Coord A exon
chr17:73679019-73679395
Coord C2 exon
chr17:73678962-73679018
Length
377 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
CTGTTTTCCCTTTGATCCAGGAA
3' ss Score
10.13
Exon sequences
Seq C1 exon
GGATCCAAGCAGCAATTTCAACCTCAGAGCCCTCAAG
Seq A exon
GTAAGTGTGCAGATCTTGCGTGCCATCTTTGTTAGCTATGTCACATCCCCCAAGAGCGTCTTCCTCCTTCCTGGTCTTACTATTGGCTATGGAAAATGGAGACAATATGATAGGCTATTGGAAGCTCTAAGAGGTGGGGCAGAAGTCCAGTCCTCCAATACCAGACCGAACCCAAGTATCTTCTTTCTAACAAACTTTAGTTTTCAACCTCCTTTAAAGTTTGATTTCCTTTACCTCAGTCCTGCAACTACCAGGTGAATCTGTTGTCTTGGATTCAGGCATCCTTCAGTCAGGCCAGCTCTTACTAAAACAAGGTTGTACCAGATGAGTGGCCTCTTTCCCAGAAATTTAATATGACTGTTTTCCCTTTGATCCAG
Seq C2 exon
GAAAGTCTTCCAGAAAATGGATCCCGAAATAGCATTTCCTACACATACATGGATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000043705-Capn13:NM_001033444:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.615 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=PD(0.1=0.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
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
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: