MmuINT1007289 @ mm10
Intron Retention
Gene
ENSMUSG00000068917 | Clk2
Description
CDC-like kinase 2 [Source:MGI Symbol;Acc:MGI:1098669]
Coordinates
chr3:89168695-89169702:+
Coord C1 exon
chr3:89168695-89168923
Coord A exon
chr3:89168924-89169617
Coord C2 exon
chr3:89169618-89169702
Length
694 bp
Sequences
Splice sites
5' ss Seq
TCAGTGAGT
5' ss Score
7.68
3' ss Seq
CCCCCACCCCCCGACAGCAGCAC
3' ss Score
1.78
Exon sequences
Seq C1 exon
CAGCTATGATGACCATTCGTCCGATCGGCGGCTGTACGATCGGCGGTACTGTGGCAGCTACAGGCGCAATGACTACAGCCGGGACAGAGGGGAGGCTTACTACGACACAGACTTTCGGCAGTCCTATGAATACCATCGAGAGAACAGCAGTTACCGAAGCCAGCGCAGCAGCCGAAGGAAACACAGAAGGCGGAGGAGACGGAGCCGGACATTCAGCCGCTCATCTTCA
Seq A exon
GTGAGTGCCAGCCCAGCCTTTTACTCTCCCCATTCTTCTTCAGTCCCTCAGGGACCCTGATGAGTAAAATGTCCCCTTGTTCTCAGACATGCTTTGGAGCATGAACATTGGAGTGGGCACTAAGTATGCCTACCCTCTTGGGAGCTCTCTGACTCTCGAGGGTTCCCAGATCTACTTTGGCAATAGGAGGTCATACATCCTCTATGCCCTCAGTGATGTTGGATGGATATGTTGGGCTTGTGTTGGGAGCAGCTGCTTTGCCCCTAGGTCCTCTGTTTTTTTTTATGAAGATCTTGGTTTTGAAAGACCTGTGTCTCCCAAGCCCTGGAGTCTGTGGCCCCTGAGTGGGCAATTTTGGGTTGGGGGGCAAGGGGAAACTGCGTCTGCCTAGAAATGTGCTTCATAGAGCATGGGGTTGTGGGTAACACTGGCAACATCATCACTTTCCTGCTCTGCCCGTGCCTCTCCCCGCTCTGATTTGGGTTTGGGGACTTGGGATTATGCGCCGCTCTCTCTTCTCACACCGATCCGCCTTAGCACATCTGACGTGTTCCCTTCCACTGTCCCCCATCATCGTCTGTCCCCCCTGGCTGGGCGCCTGTGACCGGTGACCCCTACACCACCCACCCCGTCTCCCTCCGGCCCCCGATCCGACACCTGGCTTGCTCCGACCCCCCCCACCCCCCGACAGCAG
Seq C2 exon
CACAGCAGCCGGAGAGCCAAGAGTGTAGAGGACGACGCTGAGGGCCACCTCATCTACCACGTCGGGGACTGGCTACAAGAGCGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000068917:ENSMUST00000121212:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.678 A=NA C2=0.280
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0006920=Pkinase=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCTATGATGACCATTCGTCCG
R:
CTCTTGTAGCCAGTCCCCGA
Band lengths:
310-1004
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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