MmuINT0028678 @ mm9
Intron Retention
Gene
ENSMUSG00000058626 | Capn11
Description
calpain 11 [Source:MGI Symbol;Acc:MGI:1352490]
Coordinates
chr17:45790132-45790705:-
Coord C1 exon
chr17:45790455-45790705
Coord A exon
chr17:45790202-45790454
Coord C2 exon
chr17:45790132-45790201
Length
253 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
TTCTTATTCCTTTACCACAGGAT
3' ss Score
9.22
Exon sequences
Seq C1 exon
ACATCTCTTGGGCTGAAAAAGGAATGGTGGCTACCATAAACCACTCCAGGCTCAAGGACAAGGGCGTGGGCCAACACCAAAATGCCTACAACTATAAGAATCAGAACTATGAGGACCTTCGAGCAGAGTGTCTCAGGAAGGGGGAACTGTTCGAAGACCCCTTTTTCCCTGCTGAACCCAGGTCTATCGGTGTCAAGAACCTGGGCCCCAACTCTGAACACATGCAGAATATCTACTGGCAGCGGCCAAAG
Seq A exon
GTGGGCACTGGGAAGAGGGAGGGCCCTGGCACTAAGCCCTGATGCCACCAGAGCTGGGAGCAGTTCTGTACGTGCTGCTACTAAACCTCCTAGTTTAATCAGGGGCTGGCACCCAAGCCTGGCTGCCACACCCAAGCTATGCTCAGGGTTCAGCACCCTCCCCCACCCTCCCAGCGCTCGCCTAGAAATAAGAGGTAAAGGGAGCTGGGGAAGGGGACCATCACCTCTCGACATTCTTATTCCTTTACCACAG
Seq C2 exon
GATATCATTCATAACCCCCAGTTCATCACGAATGACTTCTCTCCCACGGACATCTGCCAAGGGATCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000058626-Capn11:NM_001013767:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.051 A=NA C2=0.014
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=PU(11.3=40.5)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(13.2=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:
GGCTGAAAAAGGAATGGTGGC
R:
TGTCCGTGGGAGAGAAGTCAT
Band lengths:
293-546
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: