MmuINT0028680 @ mm9
Intron Retention
Gene
ENSMUSG00000058626 | Capn11
Description
calpain 11 [Source:MGI Symbol;Acc:MGI:1352490]
Coordinates
chr17:45767153-45767733:-
Coord C1 exon
chr17:45767675-45767733
Coord A exon
chr17:45767561-45767674
Coord C2 exon
chr17:45767153-45767560
Length
114 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CTTTTCTGCTGTCTTTGCAGTGG
3' ss Score
9.92
Exon sequences
Seq C1 exon
CGTTCTTCTTATCCATGGACACCAAGAAAACTGGTTCTATTTGCTTGGATATTAACCAG
Seq A exon
GTAAGAGGGAAGGCATGGGAAGGGTCGTCTGGCCACACCCTGAACCCCTCCCCTCTAGTCCCACCCACTCTCCATCCTCTGCAGAAAGTCTCCTCTTTTCTGCTGTCTTTGCAG
Seq C2 exon
TGGCTGCAAATAACCATGTGGGGGTAGGGAGATGCGAAGCCTGGCTCCCTCGTTCCTCCCTCCGCCGGTGGCGCTCCTGCTCCGGCCAGGATGGTGGATGCTCCTTGTCGCTCTCGCTCTCCAGTGCCCCAGGCACAGTGTTTACTCTGGTCCCCTGATCCGGGCTGACCGGAACACCAACACCCCCCTCCCCCACCCCCACCACGCCCCGAGCACTCTCACGCCGTATTTAGACTAAAAATGAGGTGGATTCTCCGCCAGTTTTTCTCTGGCGAAGGCAATCTTCAGCTTAAGTGTTCCCGCGTGCTGTCAACTCACACCCGCCTCCTAGCCCGCCCTCTTGTCAGGAATTCCATCGCCTCCCCGCGCCGCGTCGTACACATTATTCTAATAAAGAGGACAAGGTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000058626-Capn11:NM_001013767:21
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTTCTTCTTATCCATGGACACCA
R:
GGTGTTGGTGTTCCGGTCAG
Band lengths:
243-357
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: