MmuINT0028697 @ mm9
Intron Retention
Gene
ENSMUSG00000054083 | Capn12
Description
calpain 12 [Source:MGI Symbol;Acc:MGI:1891369]
Coordinates
chr7:29675930-29677754:+
Coord C1 exon
chr7:29675930-29676008
Coord A exon
chr7:29676009-29677637
Coord C2 exon
chr7:29677638-29677754
Length
1629 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGG
5' ss Score
6.34
3' ss Seq
ACAAGGCGGCCTCCTCGTAGGCT
3' ss Score
4.35
Exon sequences
Seq C1 exon
GCCACATTTGACAAGTTTGATGAAGATGCCTCTGGGACAATGAACTCCTGTGAACTGAGGCTGGCACTGACTGCTGCAG
Seq A exon
GTGTGGCTGAGGACCTGGGATGCTGTAGGGACAGCAACCCATCCTCAAATTCTTGTCTGCATCCCTCAGCTGTGGCCATCCCTAATAGGCTGTCCACAAGTGCCAGAGCCCATTTCCTTCCCTGGAGGCTCTGACTGCTTATCTGTGGCATGGCTAATGTGTAGTATGGCAAGGAGCCCACAAGATGCCACAGAACACCCCAGATACCCTAAAGCACCTTATGAGGCTACGGAGTTATACAACAGAGGATGAAAATCCCATCCTAAGCCATGGAGAAATGTATGTTAGGGTGGGATTATCGTGATTTCAGAAGACCGTCAGCTCCATGCCTCCATGGGTTCATCTGTGACCACTAAGTAGGAGCCGGGGCAGGCAGGCAGGGGGCGGCACGTAGGCTAGTGAGAGATGAGAGACTACAAGTATGAGACCTAGAATAGTGGCCAAGAACATGGAAGACAAGATCCCAAGGCAGAGTCCAAGGTGGGGGCCAGGGTGCTGAACTAAAGCAGTGGACACAGGACAGAGGGGAGGTCGGGAACTTACTCGATCATCCATCCATTCATCCCAGAGTGCCTGGTTGTTTTGGATAGGAGTCTGATAATAATGTTTGCCTGGGAATCTTCAGCAATTCTAAGAGGTTGACAGAGGGCTCCTGGGTCAGGAACTACTGCCATCTAGCCAGGTTTCCCTTCAGCCCTGGGCCAGCATAGACCAATACTCAGGGTACATGGACATCAGAGGGACACCGACCTGCCTCAGGCCACCTAGCTCTGGGCATGGTGTGCCTGGTGTTCGTGGGGGTGGGAGGGGCAGCATCTGTTGAATGAGCACACAAAGGTACAATACAAACTTGTACAGTTATCTTTGAGACTGTATGGGGCTCATGGAAGCTGGGAGGGACAAGTCCTTGGGCCTTAGGGCTTCTAGAAATCCATTGCATTGTGATTCTACAGCAGATGTGACAGAGCCAATGTCTAGACTTTAGGTGCGGCCTCAGAGGAAGAGTCACACAGTGGTACCCAGTCGGGGAGATAGTCCGTCAACCTCTGAAGGCGCAATCACAAAGCTGCACCTGTTGGCACCTTGAGAAGCAGCCTAAGCAACTTAAGTGTCACACTAACTTCCCAGAGGGCTGGGGTTGTAGCTCAACGGAGAGAGCATTTGCTTGGCCTATGCAAGGGCCCCGGGGTTCCACCCCCAACACTCCAAAACAGCCACAAAAGGCCCACATCAGTTGGAGAGTGCTCCTCAAGCGTGCTGGAGGCCCTGAGTTCTAGATCGAGTACCACATAAACCACAGGCTGAACTCTTGGCACCCGAGGAGGGGCAGGGGCCTCAGGAGCTGGTGACAGTCCTTGGCTATGTAGGAGTTAGAGGACAGCTTCTTTCAAACAGCACACAGGAATGCTGCGTAGGTAAGGAACTTTTACTTGCAACTCCAGTGTGAGGGCCAGAGTTCAGATCCCCAGCACCCACGTGAAGGGCAAGTGATCTCGGTGAGCCTCGGCCTCAGTAGAGAAAGGACTGAGGAAGACGCTCCCCATGTACGTGTGCCCACCCCCAACACTAAAATAAGCAGCACCACACGTGGATACTGTAAACACAATAAACAAGGCGGCCTCCTCGTAG
Seq C2 exon
GCTTCCACCTCAACAACCAGCTGACCCAGTCCCTCACTAGCCGCTACCGGGACAGCCGGCTCCGTGTGGACTTCGAGCGCTTCGTGTGCTGTGCAGCCCGGCTCACCTGCATCTTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054083-Capn12:NM_001110807:18
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:
PF134051=EF-hand_6=FE(81.2=100)
A:
NA
C2:
PF134051=EF-hand_6=PD(6.2=5.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCACATTTGACAAGTTTGATGA
R:
GAAGATGCAGGTGAGCCGG
Band lengths:
195-1824
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: