MmuINT0028778 @ mm9
Intron Retention
Gene
ENSMUSG00000035547 | Capn5
Description
calpain 5 [Source:MGI Symbol;Acc:MGI:1100859]
Coordinates
chr7:105273752-105274454:-
Coord C1 exon
chr7:105274339-105274454
Coord A exon
chr7:105273889-105274338
Coord C2 exon
chr7:105273752-105273888
Length
450 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CTCCCCAATCCTCTCTCCAGGAG
3' ss Score
9.32
Exon sequences
Seq C1 exon
GGAACTACGCCTGGATGAGCCCCCTCGGACCTGTTGGAGTTCCCTCTGTGGCTACCCTCAGCAGGTGGCCCAGGTACATGTCCTGGGGGCTGCTGGCCTCAAGGACTCCCCAACAG
Seq A exon
GTGAGCTCCTCTGGAGTTTACCTCAGGCTCCCTCTACTTCAGTGCACACCCCAGTCTCCTGAGACCTCAGCACCTGTAGACCATCAGCCATCCAGCGGGTGATGTGAGCTTCTAGAGAGGTCCACTCGTGCCTCCCTGGCGCCCCCATGTGGTGGGGACATCAGATAGCCGCTGGGGGTTCAGAGACAGCTTCTCTTCTTCTAGAGAAGGTGTTGAGCTGAGAAACCCATATACAGAGAACGATTGGCAAGAACCATAGGCCAGAGGCCACTCTGTACTCTTCCCTCTACCTGGCCCTAGAAAGTAGGGGACTAGGAAGGTGAATCAGTGTCCTGTTTCCCCTTCCCCTTTGGGACAAAGATCAGGTTGGCATGTCACCTTCCAGACACCTGTCCCATTAGGCTCTGTACCAGCCCCGTCCTCACCCCAGCTCCCCAATCCTCTCTCCAG
Seq C2 exon
GAGCAAACTCATATGTGATCATCAAGTGTGAGGGCGAAAAGGTTCGCTCAGCTGTGCAGAGAGGGACCTCGACACCAGAGTACAATGTAAAAGGCATCTTCTATCGCAAGAAGCTGGCTCAGCCTATCACCGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035547-Capn5:NM_007602:11
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=0.065
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=PD(0.1=0.0),PF0016825=C2=PU(20.5=40.0)
A:
NA
C2:
PF0016825=C2=FE(57.7=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:
GAACTACGCCTGGATGAGCC
R:
CTGCACGGTGATAGGCTGAG
Band lengths:
252-702
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: