HsaEX0015705 @ hg38
Exon Skipping
Gene
ENSG00000113240 | CLK4
Description
CDC like kinase 4 [Source:HGNC Symbol;Acc:HGNC:13659]
Coordinates
chr5:178616882-178618778:-
Coord C1 exon
chr5:178618556-178618778
Coord A exon
chr5:178617344-178617434
Coord C2 exon
chr5:178616882-178616948
Length
91 bp
Sequences
Splice sites
3' ss Seq
CTGCCCACTTGCCGTTCCAGAAG
3' ss Score
7.46
5' ss Seq
GATGTATAG
5' ss Score
-2.49
Exon sequences
Seq C1 exon
TCATTATTTAGAAGCAAGGTCCTTGAATGAGCGAGATTATCGGGACCGGAGATACGTTGACGAATACAGGAATGACTACTGTGAAGGATATGTTCCTAGACATTATCACAGAGACATTGAAAGCGGGTATCGAATCCACTGCAGTAAATCTTCAGTCCGCAGCAGGAGAAGCAGTCCTAAAAGGAAGCGCAATAGACACTGTTCAAGTCATCAGTCACGTTCG
Seq A exon
AAGAGCCACCGAAGGAAAAGATCCAGGAGTATAGAGGATGATGAGGAGGGTCACCTGATCTGTCAAAGTGGAGACGTTCTAAGAGCAAGAT
Seq C2 exon
ATGAAATCGTGGACACTTTGGGTGAAGGAGCCTTTGGCAAAGTTGTAGAGTGCATTGATCATGGCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000113240_MULTIEX2-1/4=C1-2
Average complexity
S*
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
Show structural model
Features
Disorder rate (Iupred):
C1=0.341 A=0.323 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
PF0006920=Pkinase=PU(0.1=0.0)
C2:
PF0006920=Pkinase=PU(14.8=95.7)
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
CGGGTATCGAATCCACTGCAG
R:
ATGCCATGATCAATGCACTCT
Band lengths:
167-258
Functional annotations
There are 1 annotated functions for this event
PMID: 31911676
[CRISPR screen]. Conserved poison exon with negative fitness/survivability impact when depleted: HeLa Depleted at 14 days (FC=0.725, FDR=0.000), PC9 No Change at 14 days (FC=1.106, FDR=0.829), Late Xenograft No change (FC=1.369, FDR=0.260).
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development