MmuINT0028758 @ mm9
Intron Retention
Gene
ENSMUSG00000079110 | Capn3
Description
calpain 3 [Source:MGI Symbol;Acc:MGI:107437]
Coordinates
chr2:120322714-120324721:+
Coord C1 exon
chr2:120322714-120322750
Coord A exon
chr2:120322751-120324703
Coord C2 exon
chr2:120324704-120324721
Length
1953 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
ACTGTCCCCTTTCTATGCAGAAA
3' ss Score
10.67
Exon sequences
Seq C1 exon
GGAAGCTGAAAATACAATCTCTGTGGATCGGCCAGTG
Seq A exon
GTAAGTGGTTAGGCTCTTAACTATGAGAAGATATGGGGGTCACATTCCAGCCCAGGCAGGGGCAGTCAAGTGTGCATGGCAGAAGGAATGATGCTTCTGTTATAGAACCATTTTGCTGGTCAGAAGCAGGAGTGTGGAAGAGGAGAAAATATTTTATCAATTAGAGGAAGGCAGCTGGGTTTAGGAAGTGATGGCAAGGAAGGCTAATATTGGCTTAAGAGGTTGGATCGCATCTGATTTCTCACACAGAGAAAAGGGACTAGGTTCAGGACCCAGGGTCAGAACCTGGGTCATTCACCTTCCACCTTGGTGACTTGGTCAAGTTTACAGAACCCCTCTGACTCAGCTTTCTACTCTGTAAAATGGGGATAATCATAATCCCCTGGCCATGCTGGTGGAGTTTAGATCTATAAGCTCACACATGTGAAATGTCAGGTGTAGCATGTGCATCACAAGGGTATTTCTAGATATCCTTCATGACTGTGGCTTACATCATTTCTTCAAACATTTGGAGAAGAGGACGAGATGGATAAGGTTGTCATCCCAGCTTTTCACTCGAGAAGGTGGTGGCTCAGTGGGGTTAAATGGCTTCCTTGCACTCCTGGAGGCAGGAAGTGGCAGGTAGGGCAGCGGAGAAGTTTAGAGTCTCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTGTGTGTGTGAGTGTATCAGGAGAGAGGGGTCGGTGTAATGGAGGAGACTCAGGTCTGCCATGGACCTTGTGGCTGTTCTCAGAGTGACTTGACCCAGGACAAACGCCCCACTGAGTGTCTTTCAGGTAGTGACTCCATGATCACAATGCTGGTTCCATGCTAGGGCTGGAGCCAGGTACCTTCCTAACAACTGCACATCTTATTTTAGGGTTGGGTGTGTCTTGCTCTTCCTCATCCTTTGGGTGCTGGAACAGCATAGAATATGTTTCAAGAGTTGCTCACTCAAAGATTTCATGGACTGGGAGCGTGGCTGAGTGTAGAATGCTTGCCTGGTATTCACAGGGCTCTGGATTCAATTCTAGTGCTGCTTAAGAGGGAGGAGGGAGGCTCATGGGAACAGGCATGTCATGAGTACTGCAGGTCAGTGGAGGGGGTCTAGTGTCCTTACATACCTATGTTTGTCAACAGCTTTCAAATAATACATGGTGGGCCAGGTGTGGTGGCACAAGTGAATCTCTGTGGTTTCAAGGCCTACAGAGAGAGTTCCAGGACAGCTAGGGCTACACAGAGAAACCCTGGTTTTTTGTTTGCTTGTTTTGGGGGATTTTTTTGTATTTTGTTGTTGTTTTTAAAGACACTGGGTAGGGGCTCAGCTGACTTGCCACAGGACATTGCTCGCCCAGTGTAATTGCCAAACCTTCCGATTTTACAAAAAAAGCCCTAACCTGGAAACACATATGAATCTCCCTGTTACATGTTTGCCTAAATATTAAAACAAAATCTCCTTAAAAAAAAAAAAACTTCACTTTCACACAGGTTTGAATGAGCCACATTTTGGCGACCAATTCTATTTTTAAGGACTGGCAAGGTCCTTTCCCTCCTCAGCATCGGATTAGCAGAACAAAGCGTAGCAGCTGTCAGTCTTGGGATGTGGCAGAAGAATACTCTTCCTCCTTTGCACTCTGTGTTCTTTAAAAAATTGTATTTTATTAATTTATTCATTCATTCGTGTATGTGCATGTCCCAAGCACATATGTGGGGGTCAGAGGACAACTTGTGGCAGTCAGTTCTCTTGTTTTGCTTTGTGGTTCCCAGGGGTCATTTGGGTTGTCAGTCTTGGTGGCAAGTGCCTTTACCCCTGAGCTCCAATTGATTACAATATCTGGACTCTAGAGTCTTGAGCCACTGGCCACCCTAGAAACTTGATTTTCACCCATTCCTCATTTACTGTCCCCTTTCTATGCAG
Seq C2 exon
AAAAAGAAAAAAAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079110-Capn3:NM_007601:14
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.833 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=PD(0.1=0.0)
A:
NA
C2:
NO
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:
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: