MmuINT0028763 @ mm9
Intron Retention
Gene
ENSMUSG00000079110 | Capn3
Description
calpain 3 [Source:MGI Symbol;Acc:MGI:107437]
Coordinates
chr2:120328265-120328780:+
Coord C1 exon
chr2:120328265-120328329
Coord A exon
chr2:120328330-120328711
Coord C2 exon
chr2:120328712-120328780
Length
382 bp
Sequences
Splice sites
5' ss Seq
GATGTATCC
5' ss Score
1.64
3' ss Seq
TCCTTACATCTATCCTCTAGACA
3' ss Score
7.37
Exon sequences
Seq C1 exon
ACAAGGACCTGAAGACACAAGGGTTCACGCTGGAGTCCTGCAGAAGCATGATAGCTCTCATGGAT
Seq A exon
GTATCCTTCCATCTGCCCAGAGGGTCAGGGGAACAGTTAAGGGTGTCCACGCCCAGGGAAAGACTTAAGGGAATCCTAACACAGATACTCCTGGATATCTGGCAGAGGTTAGGAATGGATACTGGGTAGTGGCTGGTCATCACCTCTGGCTCTTACCACAGATTTGAAACCCTGCTTGGCATGCTGCCCAAACTTCCTAGCGGGCAGGCTCTGTGAGCTGTAAAGCTGGCAGGAACTCTGGTTAAGGGAGGATAGAACCTGGCAGAGTCAGGGGCCCTGGTAAAGGTGGTTTAACCACCTTCCCTGCATAGTGCCCTAGACACCCCCACCCCGTTCAGAGGCATTTTACTATGTGCCTGTGGTCCTTACATCTATCCTCTAG
Seq C2 exon
ACAGATGGCTCTGGAAGACTGAATCTTCAAGAGTTCCATCACCTCTGGAAAAAGATCAAGGCCTGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079110-Capn3:NM_007601:19
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.154 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138331=EF-hand_8=FE(35.6=100),PF0175117=Toprim=FE(21.0=100)
A:
NA
C2:
PF138331=EF-hand_8=PD(30.5=78.3),PF0175117=Toprim=FE(22.0=100),PF134991=EF-hand_7=PU(3.2=13.0)
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: