MmuINT0028837 @ mm10
Intron Retention
Gene
ENSMUSG00000038599 | Capn8
Description
calpain 8 [Source:MGI Symbol;Acc:MGI:2181366]
Coordinates
chr1:182627978-182628715:+
Coord C1 exon
chr1:182627978-182628056
Coord A exon
chr1:182628057-182628598
Coord C2 exon
chr1:182628599-182628715
Length
542 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATG
5' ss Score
5.99
3' ss Seq
CAGTCTCTCTTGGGCATCAGGTT
3' ss Score
3.98
Exon sequences
Seq C1 exon
GAGATCTACCAAGAAATGGACCACAGCCGTGCAGGGACCATTGATGCTCACGAGATGAGGACAGCTCTCAAGAAAGCAG
Seq A exon
GTGATGAGCCATCCTGTAGAAGAGGTCTTAGGGCCCAGATGCACTCACCAGAAATAGCACATGTTCTCATGGTGGGGAGGCCTAAACGTCTTTCCCATGAGCTTTCTTACTCTGAGTGCCAGCGTGACAACAAAGTCTTGCTGAAGATCCATCCTATTCATGGAGGAGGGATGCTCAGGGCTCTGCCTTCTGCCTGTTGCTGAGGCCATGGTAGCATTTACAAGGTGTGGGGCTCTGCAGGGGTCTACTGATACAAAAACCCTCACCCACCGTTTCTATGTTCACATACTGTGGGTATGTAGCTATGGCTACCCCAGGGCTGGGCTGCTGTAGGGAAGGGACTGATGAAACTTCTCTGAAACGGGAGGGACTTGTTGGCAGGGCCTCCGCTGGGATTTCCTGGGGGAGGCAGAGGAGTCCTGCTTTATAGGTTTCCACAGAATCATGGATGGCCCCTGTGGTGCCATCCCCTTGAAGTCTATCAGGAAAATGCGAAGACCTTCGCACCACCCATGAACGACACAGTCTCTCTTGGGCATCAG
Seq C2 exon
GTTTCACCCTCAACAACCAGGTGCAGCAGACCATTGCCACGAGGTATGCATGCAGCAAGCTTGGTGTTGACTTTGACGGCTTTGTGGCTTGTATGATCCGCCTGGAGATCCTGTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038599:ENSMUST00000048941:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.037 A=NA C2=0.081
Domain overlap (PFAM):
C1:
PF0229611=Alpha_adaptin_C=FE(27.7=100),PF134991=EF-hand_7=FE(28.9=100)
A:
NA
C2:
PF0229611=Alpha_adaptin_C=FE(41.5=100),PF134991=EF-hand_7=FE(43.3=100)
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:
AAGAAATGGACCACAGCCGTG
R:
CAGGATCTCCAGGCGGATCAT
Band lengths:
182-724
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