MmuINT0028836 @ mm10
Intron Retention
Gene
ENSMUSG00000038599 | Capn8
Description
calpain 8 [Source:MGI Symbol;Acc:MGI:2181366]
Coordinates
chr1:182627536-182628056:+
Coord C1 exon
chr1:182627536-182627604
Coord A exon
chr1:182627605-182627977
Coord C2 exon
chr1:182627978-182628056
Length
373 bp
Sequences
Splice sites
5' ss Seq
CTGGTAACT
5' ss Score
5.45
3' ss Seq
AACTTTCTCTCTGGCTTCAGGAG
3' ss Score
8.4
Exon sequences
Seq C1 exon
GGTGATGGGACAGGAAGCCTGCGACCGGTGGAGTTCAAGACTCTCTGGCTGAAGATCTGCAAGTATCTG
Seq A exon
GTAACTACCTCTGGGGAGAGAAGGGCATCTCTCTGGGCCCAGGCCCCTTCCCTTCCTCCTGACCCTCTGTAATACTTATTCCTGGGGTGTTCTAGATTCTGTACTCTGGTCAAAACCACACCTAGGTACACTGTTCAGAAAGGAGCCAGGAGGCAAAGGCAAAGGCAGACACTGATGCTGACCTCTTTAATGAGAGCCTCGTGCAGAAGACAAAGCACGCCACTGACATTAGCCCCATTTCTATGTGTTCCAGAGTTTCTTTGGAGATGGCAATACAGCCTCTCTAGAGTGCATCCTTGGTCTCTCAAGAGAGGAGTCGATGGGGACGGAACTGTCAATGCTGTTTTCATGTGAACTTTCTCTCTGGCTTCAG
Seq C2 exon
GAGATCTACCAAGAAATGGACCACAGCCGTGCAGGGACCATTGATGCTCACGAGATGAGGACAGCTCTCAAGAAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038599:ENSMUST00000048941:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.037
Domain overlap (PFAM):
C1:
PF0229611=Alpha_adaptin_C=PU(20.2=82.6),PF134991=EF-hand_7=PU(2.2=8.7)
A:
NA
C2:
PF0229611=Alpha_adaptin_C=FE(27.7=100),PF134991=EF-hand_7=FE(28.9=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
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
- 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