MmuINT0028744 @ mm9
Intron Retention
Gene
ENSMUSG00000026509 | Capn2
Description
calpain 2 [Source:MGI Symbol;Acc:MGI:88264]
Coordinates
chr1:184420998-184422326:-
Coord C1 exon
chr1:184422193-184422326
Coord A exon
chr1:184421167-184422192
Coord C2 exon
chr1:184420998-184421166
Length
1026 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
AGCATGAATTCCCCCTTCAGGAT
3' ss Score
7.3
Exon sequences
Seq C1 exon
TTCTGGCAATATGGCGAGTGGGTGGAGGTGGTGGTGGACGACAGGCTGCCCACTAAGGACGGGGAGCTGCTCTTTGTGCATTCAGCTGAAGGGAGTGAGTTCTGGAGTGCCCTTCTGGAGAAAGCCTATGCCAA
Seq A exon
GTAAGTAACCACGCCCTTCCCCAACACCCCATCTTGCCTCTGCTGCCCTGGACTCCAAAACAGCGGGAGCTATTTCGGGGACTGTTTTGAATAGACATTCTGTTCTATAAAAGGATGACTTTGGCCCAAATTTGGCTCTTAATTCAAGGAGGTAATATGGGTATGGTGGCTGTTCACATGATGTACTGGTACAGGACAGTCATTGCTCTTTCTGAGCAAGTGAACTGGGACATTCTGGGGCTGTCTGCTCTGGCCTTGAGAAAGAACTCTGCTTCTCTGGTGGGCCCCCATTGCCTCTTAGCTGAAAAGACCAAAAGCTTCTGCCAGTGGGCAAAGCTACCCATTGCAGGGGTAGAAAAACTGTAGAAACTCACCCAGAATAAATCAGGTGGCTGGTAAGAATGGCTTCTTGGTTCTAATCCTAGCTGTGTATCACCCAGCTGGCCCAAAGTTGTGCTGGGTCCACCCCGGATGTCAGCCCTCTGCAGCGGGAGCCTCAGGTGCTGGTGCTGGTGCTGGTGCTGGTGCTGGTGCTGGTGCTGATGCACTCACTGCATTAAGATGGAGCTAGTGGGTTTAGGATCTCTACAACCCCAGGCCAGACACTGGGGCAGGGGGGCTTCATGTTCTTAACCAAGAGAACTTGGGGCATAGAGCTCAGGGCATGACCACAGGAACCTGCTGTGTGCTTTTTGGGAAACTGGGTTCATTTCTGAAGTGTCTCCAGCCAACCTCTGTGTCAGGGCTAGAGTCAACGCCAGAGGCTGGATCAGAGCAGCATTAAGTCATCCCAGAACATCACTAAACCCTTCCTGGTTTGGTACAAATTCTAAAGCATGTTGTAGCCACAGAGGAAAATAACTAGAGGGATCGCTCCTTGCCTTCCTGGGCACCCCGAGTTGGAGACAAAGACAAGGAAGATAAAAGCAGAGGACCCCATGAGCTCCCAAGTGGGGATCTAAGTTGGAGTGGGGAGGCATTTTCAGGGATGAAGGCTCCCTGTTGCAGCATGAATTCCCCCTTCAG
Seq C2 exon
GATCAATGGGTGCTATGAAGCACTCTCAGGGGGTGCCACCACGGAAGGCTTTGAAGACTTCACAGGAGGCATTGCTGAGTGGTATGAGCTGAGGAAGCCTCCTCCCAACTTGTTCAAGATCATCCAGAAGGCTTTGGAGAAAGGTTCTCTGCTTGGCTGCTCTATCGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026509-Capn2:NM_009794:4
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:
PF0064816=Peptidase_C2=FE(14.7=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(18.7=100)
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:
CAATATGGCGAGTGGGTGGAG
R:
CGATAGAGCAGCCAAGCAGAG
Band lengths:
295-1321
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: