MmuINT0028643 @ mm10
Intron Retention
Gene
ENSMUSG00000024942 | Capn1
Description
calpain 1 [Source:MGI Symbol;Acc:MGI:88263]
Coordinates
chr19:5991856-5992414:-
Coord C1 exon
chr19:5992350-5992414
Coord A exon
chr19:5991925-5992349
Coord C2 exon
chr19:5991856-5991924
Length
425 bp
Sequences
Splice sites
5' ss Seq
GATGTATCC
5' ss Score
1.64
3' ss Seq
CCTTCTTAACATCTGCCAAGCGA
3' ss Score
1.29
Exon sequences
Seq C1 exon
ACAAAGACCTGCGCACTAATGGCTTCAGCCTGGAGTCGTGCCGCAGCATGGTGAACCTCATGGAT
Seq A exon
GTATCCTTCCACCTACTCTGGTGTCTGGTGGAGTTTGGGGTGGAGGATAAGGCTGTCCACCTGTCCTACGAGCAGCTGAAATGCTTAGGCAGAGCCAGGAGAGTGTGGATGTGGTCAGGCCTCACGTTCAAACACCTTCCTGGATAGCTTGCAGTTGGCCAGCAAAGGAAACTCTGAGTCAGAGGTCTTGTGGGAAGTGGAGCAAGAACTCGGTCCCTATTTGGCCCTAAGGCTGGTAGCTCTCCCACTCTGCTTCACTGTATCTGATACACACAACAACGCTGGCTGAGAGCTGCAGAGAGCTGCAGGGAGCTACAGGGAGCTGCTGTTGTCTCTCCCCTCCACAGCCAGGCTCCCTTCCACCCAGGCCTCCCTCTCACATAAGTACTTTAAGCTGAGTAGTTTCCTTCTTAACATCTGCCAAG
Seq C2 exon
CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024942:ENSMUST00000025891:17
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:
PF138331=EF-hand_8=FE(34.4=100)
A:
NA
C2:
PF138331=EF-hand_8=PD(29.5=78.3),PF134991=EF-hand_7=PU(3.4=13.0)
Main Inclusion Isoform:
NA
Other Inclusion 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