MmuINT0028700 @ mm10
Intron Retention
Gene
ENSMUSG00000054083 | Capn12
Description
calpain 12 [Source:MGI Symbol;Acc:MGI:1891369]
Coordinates
chr7:28892823-28893563:+
Coord C1 exon
chr7:28892823-28892881
Coord A exon
chr7:28892882-28892961
Coord C2 exon
chr7:28892962-28893563
Length
80 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TATCTTTCTTTTCTCTTCAGTGG
3' ss Score
9.63
Exon sequences
Seq C1 exon
GCCACTGCTGCCAACACCTGGATGGCGGCGAGGGGGTCGTCTGCCTGACCCACAAACAG
Seq A exon
GTGAGCTGGCCCGAGGGACAGTGTGGCTCTAGCACCATCCCAGGGCCTCTGCCTCAAGGGTATCTTTCTTTTCTCTTCAG
Seq C2 exon
TGGTCGGAGGTGGCTACCTTCTCATAGGTTTGAAGCTGAGGGAGGTCACCCTGCTGCCCGACTCACTGTCACAAAGGTGGTGGCTATGTAACCCTGGCCGGCCTCACAAGTGCTGGGATTACGAGCTGGAGCCATCCCAAACAGAACTGCCACCCTTCCTTTTGAAGCCTCTTCATGTCAGTCCCTGCTTAGAGAGGGGCACAACCCCCACACAGGCACTGGGCTGGTGGGCACTGCCAGCTCCTTGGGGCATGAACAGAGATGCAGGGAGAAGATGACACCAGAGTCCTTCTTAAAAATATTACATGTTTTATTCTCCCATCCCCAGAGGGTGGTTTATCCAGAAACCAAGAAAATAAAAATCAATCAGAATAAACTCAAGGGGGCGAGTGGAGAGAAACCCATTAACGACCAGGCAGGCAGGCCAGCAGCCTGCCTCCACCTCAGAAGGTCCCCAGAGACCTCTGCCCACCGCCACGAGGGGAAAATCAGGAGGGACTGGGGAGGGCATTGAATCAGCTATGTCTTCATTATGAGAGTGAGAGAGGTGGCAGAGATATGCAGCTAGATGGATATATATTTATATAATAAATCCGTAAGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054083:ENSMUST00000066880:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GTCTGCCTGACCCACAAACAG
R:
AAGGGTGGCAGTTCTGTTTGG
Band lengths:
178-258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types