MmuINT0028682 @ mm9
Intron Retention
Gene
ENSMUSG00000058626 | Capn11
Description
calpain 11 [Source:MGI Symbol;Acc:MGI:1352490]
Coordinates
chr17:45779778-45780821:-
Coord C1 exon
chr17:45780703-45780821
Coord A exon
chr17:45779912-45780702
Coord C2 exon
chr17:45779778-45779911
Length
791 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
TGTCCCCTTGCCACCCACAGCTT
3' ss Score
8.79
Exon sequences
Seq C1 exon
GGGACTGCTGGCTCCTGGCTGCCATTGGCTCCCTTACCACCTGCCCCAAACTGCTGTACCGTGTGGTGCCCAGAAATCAGAGCTTCAAGAAGAACTATGCTGGCATCTTCCACTTTCAG
Seq A exon
GTAAAGGGAAGACCTGAAAGAGAAGGAGGGAGGGGTGGAAGGAAGGAAGGAGAAAGACAGGAAGAGAGGAAGGGAGGAAGGGAGGGGGAGAGAGATCATGTATGTACTTATTTTGACACTGTTTGGGAATACTTTTCAACTAACTTTCAGAGAAATATCTGCTTATGAAAGCTAATTTTTTTAAACTCTAAAGAAAATAATTAGCTGTTTGTGGCTCTCTTCCTGTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGTGTGTGTGTGTGTGTGTGTGTGTGGTCCATGTGCCTGCATCCACAAATGCGCATTAGGCACTCCTGTGTACATGAAAATCTCCACCATACAATTGGTATAACCTGGATGTTTAACCGATAACTGATCAGGGGAAAGACAGGAAGGGAGGATGGAGGTGTGGAAAATAGGGAGGTATTTTAAGATTTTAAGGCTTTTGTTGACTTTCCCTCGCCTGTTCTAAAGAATGACTGGGCCTTGGTCAAGATGGTTTCGTGGATGAGTGTACTTATCCCCAGGCCTGGCAACCTGAATTTGATCCCTGAAACTTGCATGGTGGAAGGAGAAAAATAACAGACAGATATCACACACACACACACACACACACACACTATACATATATACCTTTTTTAACAAAAGAATTCCAGTTTGAGTAATTGTTGCTGGTATGTTCTTGTCCTGACCACGAGGGGGCGCTCTAAGGACAGATCTCCTGTAAGCAGACAAATGTCCCCTTGCCACCCACAG
Seq C2 exon
CTTTGGCAGTTTGGGCACTGGTTGAACGTGGTCGTGGACGACCGGCTGCCCACTAGGAACAACAAGCTGGTATTCGTGCACGCCTCCCATCGCCAGGATTTCTGGAGCGCCCTGCTGGAGAAGGCCTACGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000058626-Capn11:NM_001013767:4
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=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(22.4=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(25.3=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:
GACTGCTGGCTCCTGGCT
R:
GTAGGCCTTCTCCAGCAGGG
Band lengths:
246-1037
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: