MmuINT0037416 @ mm10
Intron Retention
Gene
ENSMUSG00000068917 | Clk2
Description
CDC-like kinase 2 [Source:MGI Symbol;Acc:MGI:1098669]
Coordinates
chr3:89169618-89170115:+
Coord C1 exon
chr3:89169618-89169702
Coord A exon
chr3:89169703-89170048
Coord C2 exon
chr3:89170049-89170115
Length
346 bp
Sequences
Splice sites
5' ss Seq
GATGTACAA
5' ss Score
-5.41
3' ss Seq
CCTACTTTCTTTCGTTTCAGATG
3' ss Score
12.1
Exon sequences
Seq C1 exon
CACAGCAGCCGGAGAGCCAAGAGTGTAGAGGACGACGCTGAGGGCCACCTCATCTACCACGTCGGGGACTGGCTACAAGAGCGAT
Seq A exon
GTACAAGCCAAATCGTAACAATCCTATAGCCTGTAATGGTCCCATAGCCATCCTAATGTCCCATGCCAACCAGGTCACAGCCTCTTGTGCCTTTCTCAGTGGTGTTGCTCATCTGGGTGGTTTGAGTTGCTGTTGAGAACTGACCTGTTGTCCACTCCCAGATCTCATGGCCCCTGGGTTAAAGGTGGTGGGAATCACACAGGGGTTTCTTCCCCTGCAGCCATCTATATCTGTTCCCCTTCCTTCATCTCCTCACCCCAGGTTGCTGTGCCCTGTTTTCTTCCAGTTCACCTCATTCCCCCCTTTTCTCCCTCCCTCTCCCCGACCCTACTTTCTTTCGTTTCAG
Seq C2 exon
ATGAAATTGTAAGCACCTTAGGAGAAGGGACCTTCGGCCGAGTTGTGCAGTGTGTGGACCATCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000068917:ENSMUST00000121212:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.280 A=NA C2=0.025
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PU(0.1=0.0)
A:
NA
C2:
PF0006920=Pkinase=PU(14.7=95.7)
Main Inclusion Isoform:
NA
Other Inclusion 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