MmuINT0028783 @ mm9
Intron Retention
Gene
ENSMUSG00000035547 | Capn5
Description
calpain 5 [Source:MGI Symbol;Acc:MGI:1100859]
Coordinates
chr7:105280186-105281535:-
Coord C1 exon
chr7:105281343-105281535
Coord A exon
chr7:105280380-105281342
Coord C2 exon
chr7:105280186-105280379
Length
963 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
TGTCTGTGTTTGCCCTGCAGGCT
3' ss Score
11.51
Exon sequences
Seq C1 exon
GCTGGCCGGCTGTTACCAGGCCCTGGACGGAGGCAACACGGCCGATGCATTGGTGGATTTCACAGGTGGTGTTTCTGAACCCATTGACCTGACCGAGGGGGACTTGGCCACTGACGAGGCTAAGAGGAATCAGCTCTTTGAGCGAGTGCTGAAGGTGCACAGCAGAGGCGGGCTCATCAGTGCCTCCATCAAG
Seq A exon
GTAGGGGGGCTGCAGGGAAGACCCCAAGCCCTGGATGGGAGGGAGTGGGACTGAGCTTGGGCCCCAGTCAGCTCATCATAATGACCCTTGGCTTTCTGGGAGATGGAGTAGGTGGGGAGCATAGCTCCCCTTCCCCAGAGCTGAACAGCAACGCAAATCCAACCCCGCCACTATGCAATACCCACTACACCGTTCACACCCCATTCAGACTCCCTTAGGCTCTTGTGTCCCAGCCTTTGAGATACTTTGTCAAGGTATAAAGTGTCAGAAGTTAAGGGGAAGCTGGAAGAGGACAGGGAGTCTCTCGTCCCTTTAAGTGATCAAGAGCTGGTCTTCAGGAGGGTCCTCTGCTCAGTCACTGCTGGGAGAAAGGTGGGTTCATTGAACCCAGCATAAGCTAGCTTTCTGCGGAGCTTGGTCAGCTGGCTCTCTAGAGACATGGAGCCCTGATTTGTGCCTTCTGCTGAGTTCCGTGGTATAAACCCTCCCGTCGAGCTCATTTTCCTCTTATGTATTCACAAGCATCTCTTAACATTTCCGAGTATTACCACCAAGCGTGGTGCCGCACATCTGTAATCTCAGTACGTGGGATTTGAGAGGCAGAGGCAGGAGGATTGCCCTAAGTTCAAAGCCAATCTAGTCCACATAGAGAATTGTAGGCCAGCCAGGCCTATGTACTGAGACGTGAAAAATTCTAAATATATAGCAATCAGCTGCAGTGGGGCAAGTTGGCACCAATATACTCTGGTGTGCGTGCATGCATTCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGTCCCTTGGTGTTCTGAGCCCTTAGCAAAGAGCTTTCTGTGAGGTTGCAGTTCCCATCCCTACCTGAAGGAGGTGATGTGGCTCCTTAGCCTAGCTCCAGTGCCTTAGTTTAGATCCCAGTGTGACCCTCCTGTCTGTGTTTGCCCTGCAG
Seq C2 exon
GCTGTGACAGCAGCTGACATGGAGGCCCGCCTGGCATGTGGCCTGGTGAAGGGCCATGCATACGCTGTCACCGATGTGCGCAAGGTGCGCCTGGGCCATGGCCTGCTGGCCTTCTTCAAGTCAGAGAAGCTTGATATGATCCGTCTGAGGAACCCCTGGGGCGAGCGGGAGTGGACGGGGCCCTGGAGTGACAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035547-Capn5:NM_007602:5
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=0.046
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(20.1=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(20.1=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:
CTGGCCGGCTGTTACCAG
R:
GGGGTTCCTCAGACGGATCAT
Band lengths:
348-1311
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: