MmuINT0028737 @ mm9
Intron Retention
Gene
ENSMUSG00000026509 | Capn2
Description
calpain 2 [Source:MGI Symbol;Acc:MGI:88264]
Coordinates
chr1:184403055-184404077:-
Coord C1 exon
chr1:184404013-184404077
Coord A exon
chr1:184403124-184404012
Coord C2 exon
chr1:184403055-184403123
Length
889 bp
Sequences
Splice sites
5' ss Seq
GATGTATCC
5' ss Score
1.64
3' ss Seq
CTTTCCTTAACCGAGGGCAGGAA
3' ss Score
0.32
Exon sequences
Seq C1 exon
GCCAAGACATCAAGTCAGACGGCTTCAGCATCGAGACCTGTAAGATCATGGTGGACATGCTGGAT
Seq A exon
GTATCCTTTCACGCGCTCCAGAGCCTGCTTCCTCAGATAGGGGAAAGTGAGCCCACTCCCACGTGCCCTCAGAGGCTTGAGGTGTGGACAGGCAGCCTGGCAGGTGTGGGGCTAGAAACCAGGGCCATACACTTGCCATCTCTGGTGTCTTCTTGGGTGACATCATTCTCTTCCTTTTGCTAAGCAGAGCTTTCCTAAACCATAGTGGGTCTGACATGAATCCGTGTCCTTGGCAAGATTTCCTTCTAAAACCATGTGTGGTGGCACACTTCTGTTAATTCCAGCACATGGTGGGAAGCAGGAGGATTTCCAGTTTGAAGGCAGCCTGGGCTACATAGAAAAAAAAATGTCTCAAACAAACAAAAACAAACAAAACATTTCTAGAGCTGAAGATGAAGATGTGTGCCGCCGCTGTTGTTTGTTCTCTTTGGCCTATCCCCTCTGGGATGCCCACCTGTCCCTGGAGCAGACTAGCCATGCTCTCCCCTCATTTCTAATGCTCAGTATTGGAACAGTCCACGCATCTATGACACCGCGTCTACTGGCCGCACGGCATTTTCCTATGACACAGCTCCCTTCACAAGACGCCTCTTCACAATACTTGAATAATGATCAAGGACCCAGATCTGTCTCTCACCTCCTAACAAACTGTTTAGTGAGATCTGGGGGCCGTAGCCCTCTTAGTCAGCTGACAGCGGGGCTCTATCACACCCTTCCTGCTGTTCCCTTTTGAGGAAACTTAAGGGTGTGAATGAAAAGCAGAAGGCAGATCCTCTGTGAAACCTCTGTGCTTGTGTTGGGAAGACCAGCAGAGCCAGCCCGTAGGCCAACTGGATGCCATTGTACCCAGTGAGTGCATACTCCAGGAGCTTTCCTTAACCGAGGGCAG
Seq C2 exon
GAAGATGGGAGTGGCAAGCTTGGCCTGAAGGAGTTCTACATCCTCTGGACGAAGATTCAGAAATACCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026509-Capn2:NM_009794:16
Average complexity
IR-S
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(2.4=8.7)
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: