MmuINT0028745 @ mm9
Intron Retention
Gene
ENSMUSG00000026509 | Capn2
Description
calpain 2 [Source:MGI Symbol;Acc:MGI:88264]
Coordinates
chr1:184420096-184421166:-
Coord C1 exon
chr1:184420998-184421166
Coord A exon
chr1:184420180-184420997
Coord C2 exon
chr1:184420096-184420179
Length
818 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
TACTGTCCTTGTGTTTGCAGATC
3' ss Score
10.61
Exon sequences
Seq C1 exon
GATCAATGGGTGCTATGAAGCACTCTCAGGGGGTGCCACCACGGAAGGCTTTGAAGACTTCACAGGAGGCATTGCTGAGTGGTATGAGCTGAGGAAGCCTCCTCCCAACTTGTTCAAGATCATCCAGAAGGCTTTGGAGAAAGGTTCTCTGCTTGGCTGCTCTATCGAT
Seq A exon
GTAAGTCTCCATCACCCTCCGCAAGCACTCAAGTCCGCCGCCACCCAGAAGCTCCTTAAGGCATGGGTGCATCCCTTGCCCAGGGTCACCAGGCAATAGTCCTCTAGGGGCGCCATTGATACAGTAACAGTGCCACCAGACCTTCATCCCCATCCCACTTTCCATTCTAACTGTGTTGTATCACTCCACTCACAGACCGCAGGTCACAAAAAGCCCCCCACCCCCCTTCTGCTGGTCTTGACACCTTGTCCGGCACCTGCAGGGTTGTTTGAGCAGCCCTGCAACCTCTCCTCACTCTGTCCCAGTGCTGGTGGGTCCTGGAGAAGACGCCAGGGAGTACCAGAAGGATCTGCTTCTTCAAAATAGCTTTGCAGGCAAACAAACCTCACCAGGGAGATGGAAAGTGAGGCTGGTCCAGGCCCCAGGAGTTTCCCCAAGCTGTGCCCAAAGGATGGGAAAGGAGGGCCTTTAAGGAGTTGGCAACCCAATACATGGATTCTGAAGTTAAAAAGTCGCTGTCAGTGCAACTTAGTTGGGCGGAGTAGGGGTTGCAGAATCACAGCATCTTGGCTACAGTTGCCACTTGGGTGTCTGTCATTAGGCCTCCCACAGACCCTTGTCTAGAAGGTGACTCATCTGGGGGGAGGGGGGGCATGCGCCAACTTGCTCCCTGGTGATCAGCAACTAAAAGTTGCTCCTCCAGGTGGCAGGATGGATGCGCAGAGTTTTCCAGACTAGGCCCGGGTGCCATGTGCATCTTTCTGGGCCATTTGTATCCGGGATGGAGCAGCTGCCACCTACTGTCCTTGTGTTTGCAG
Seq C2 exon
ATCACCAGCGCTGCAGATTCTGAGGCCGTTACGTACCAGAAGTTGGTGAAAGGACATGCGTACTCTGTCACCGGAGCCGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026509-Capn2:NM_009794:5
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(18.7=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(9.0=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:
CTATGAAGCACTCTCAGGGGGT
R:
CTCGGCTCCGGTGACAGAG
Band lengths:
238-1056
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: