MmuINT0037399 @ mm10
Intron Retention
Gene
ENSMUSG00000026034 | Clk1
Description
CDC-like kinase 1 [Source:MGI Symbol;Acc:MGI:107403]
Coordinates
chr1:58412947-58413472:-
Coord C1 exon
chr1:58413390-58413472
Coord A exon
chr1:58413027-58413389
Coord C2 exon
chr1:58412947-58413026
Length
363 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGT
5' ss Score
10.91
3' ss Seq
AACAAATGTTTTTATTTCAGACT
3' ss Score
7.47
Exon sequences
Seq C1 exon
CCCTCGGGTGGTCACAGCCATGTGATGTCTGGAGCATAGGATGTATTCTTATCGAGTATTATCTTGGATTTACAGTTTTTCCG
Seq A exon
GTAAGTGACAAAGAATGGTGTGCTTTAGTGGCTCTGAATTAAAAAGTGCCTATTTATGTAAACTACTCTAAAGAATGTATTTACAGAACAGGGGTGGGTTTTTTTTCAGTTAGATTAATAAAGCACAAGAAATTAAAATTGTGTACTTTGCCTTAGGCAGCTTTACGACTATTGTAAGCAGTTGTCTCCAGCTATTTAGGGAAGATGAGGTGCAAGCTTGAGGCGTATGATCCTTTGTTTTCCTGCAGTTGAGCCGGGTGTCATTTTGATGGTTGTCATGTATGTGACTTTGAACAGCTAGAACTGGAGAACCAATTGTTAAATGGGGCACACAGTATAAGGTAACAAATGTTTTTATTTCAG
Seq C2 exon
ACTCATGATAGCAGGGAACATTTAGCAATGATGGAAAGGATTCTTGGACCACTACCAAAGCACATGATACAGAAAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026034:ENSMUST00000034868:10
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=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(8.5=100)
A:
NA
C2:
PF0006920=Pkinase=FE(8.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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
- 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