MmuINT0028773 @ mm9
Intron Retention
Gene
ENSMUSG00000079110 | Capn3
Description
calpain 3 [Source:MGI Symbol;Acc:MGI:107437]
Coordinates
chr2:120313810-120315489:+
Coord C1 exon
chr2:120313810-120313893
Coord A exon
chr2:120313894-120315403
Coord C2 exon
chr2:120315404-120315489
Length
1510 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
GTTGTGTCTCTTTGCCTCAGGCC
3' ss Score
9.02
Exon sequences
Seq C1 exon
ACAATTGTTCCAGTGCAGTATGAAACAAGAATGGCCTGTGGGTTGGTGAAAGGGCATGCCTATTCAGTCACTGGGCTGGAGGAG
Seq A exon
GTGAGTCTGTTGGAGCTTGGTGGGGCCTGGAAACCCCTGAGCTGACCTGCTAATGTCAGGACTTAACTTTCTGTGCCTCTCTCATGACCCAGAGAACTTGCCAGTCAGGTCCAAGCTGGGTTCCTGAGGGCAGAAGGGACCTATGGGACTGACTTGAGGTAGACCTGGCCGCTAATCTTCTGGGTTCAGCTGTGTGTCTAGTGAATGTACACACTTATGTATTTGTGCCTGTGGAGGCAAGGGGTCAGTATTGGGTGTTCCTTGGTGATTCATCTTATTTTGAGACGGTGCCTCTCACTGAGCCTGGACCTTACCAATTGGTTAGGTTGGTTGGTCAATGAGCTCCAGGGATCCGCCCTCCCTGTGCTGGGGTTACAGATATACTTTGCTGTGGCATCTTTTTTACATGGGTGTTGGGGATCCAAACTTGGGTCTCTATTCTTGACCAGCAGGTATTTCATCAGCTGAGTGGTTCCCTGGCCCTTCCCTTTGCTTTTAATGCTGAAGACTGGGATTTTTCTAGTTGTTTCCAAGGAACAACTAGAAACACAGCTTTTGGCCTACAAAGTTGAGCTTGTGTACTGCCTTGTTTCCTGTTCACTCGTGTCCATTTTGCTTCCTGTGGGGTTTCTGAAGTGTCCTGGGTCATTTCCCAAGCAGGATCATTGTGAGGCTGTAGCATGCAGTTGGACAGGTTATGTCCTGAAAAAAAAAGTGGCCTAAGAGGCTGAGTCTGCATCCCCCAGGGCACATGACTGGAGAATGGGGCATCTTTTTCTAACTGATCTGTTAAGGGGAGGCATCTGTCTGTAGTTTATCTATGAGGGGCCTGCTTTAAATCACCCACAGAAAGGTGTAGTGAAGGGTCTCAGTAGAAGCACTTACTGCGCAAGTCTGAAGACTCAAGTCCAAACCTGGGACCCAGAGCAGAAGGAGAGGACTGACTCCAGGAAGTTGTCCTCTATTGTGCACATGTGCACTGAGACACATGCACACCCACCCTCACATCACACACATACACACATGTGCACACACACATGCACACACACACACACACTGAATAAAAATAAGGGCAGGAGAGGTGGCTCTGCAGTTAAAAGCATTTATTGTTCTTCCAGAGGACCTGGGTTTGGGTCCCAGCACCATCAGGTAACTCTAGTTCCAGGAGCTCTGAGAACCTCTGGCTGCCTGCTCGGGCACTTGCAGGCATATGGTGCACATAAACTCACATGGGCAGACATACATCCACATAAGTAAAAAGAATAAAGCCTAACAAAATACTTAATATGTTTCTAAAGCCTCATCATAAATGTTTATCCCCTTCCACCAGTACATACCATGGCCAGATGCCTCACCCTGTCAGCAAGCTTCTGGTTTGTCCACCTGGCCAGGGCCAGGCAGGCAGCCTTTATACTGGATTCTCACAACTTCTACCCAGCCCTCATACCAAATCAGATGCCCCATCTTTCCAAACTTGCTTGAGCTTCCAAGTTGTGTCTCTTTGCCTCAG
Seq C2 exon
GCCCTGTTCAAAGGTGAGAAGGTGAAGTTGGTGCGGCTGCGGAACCCCTGGGGCCAGGTGGAGTGGAACGGCTCTTGGAGTGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079110-Capn3:NM_007601:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.036 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(18.2=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(18.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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: