MmuINT0028698 @ mm9
Intron Retention
Gene
ENSMUSG00000054083 | Capn12
Description
calpain 12 [Source:MGI Symbol;Acc:MGI:1891369]
Coordinates
chr7:29677638-29677900:+
Coord C1 exon
chr7:29677638-29677754
Coord A exon
chr7:29677755-29677841
Coord C2 exon
chr7:29677842-29677900
Length
87 bp
Sequences
Splice sites
5' ss Seq
TCCGTGAGT
5' ss Score
8.93
3' ss Seq
CCCTGGCCTCTCCCACACAGGCC
3' ss Score
9.49
Exon sequences
Seq C1 exon
GCTTCCACCTCAACAACCAGCTGACCCAGTCCCTCACTAGCCGCTACCGGGACAGCCGGCTCCGTGTGGACTTCGAGCGCTTCGTGTGCTGTGCAGCCCGGCTCACCTGCATCTTCC
Seq A exon
GTGAGTACTCCTGGCAGGCAGGGTAGGGTGTGGTGGGGTGTGCATCAGGGCTGGTGCTGCGTACTCACCCTGGCCTCTCCCACACAG
Seq C2 exon
GCCACTGCTGCCAACACCTGGATGGCGGCGAGGGGGTCGTCTGCCTGACCCACAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054083-Capn12:NM_001110807:19
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=0.025
Domain overlap (PFAM):
C1:
PF134051=EF-hand_6=PD(6.2=5.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCAACAACCAGCTGACCCAG
R:
CTGTTTGTGGGTCAGGCAGAC
Band lengths:
168-255
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: