HsaINT0036465 @ hg38
Intron Retention
Gene
ENSG00000113240 | CLK4
Description
CDC like kinase 4 [Source:HGNC Symbol;Acc:HGNC:13659]
Coordinates
chr5:178613473-178613843:-
Coord C1 exon
chr5:178613727-178613843
Coord A exon
chr5:178613640-178613726
Coord C2 exon
chr5:178613473-178613639
Length
87 bp
Sequences
Splice sites
5' ss Seq
CTTGTAAGT
5' ss Score
8
3' ss Seq
ATTATTTTGCTCTGTTTTAGCCG
3' ss Score
8.47
Exon sequences
Seq C1 exon
GGATGGCATGCATGTAGCAGTGAAAATCGTAAAAAATGTAGGCCGTTACCGTGAAGCAGCTCGTTCAGAAATCCAAGTATTAGAGCACTTAAATAGTACTGATCCCAATAGTGTCTT
Seq A exon
GTAAGTATAACTTTCACCTAGGAGCCATCATATTACATGAAATATTCAGGTTTCCATAAACTGAATTATTATTTTGCTCTGTTTTAG
Seq C2 exon
CCGATGTGTCCAGATGCTAGAATGGTTTGATCATCATGGTCATGTTTGTATTGTGTTTGAACTACTGGGACTTAGTACTTACGATTTCATTAAAGAAAACAGCTTTCTGCCATTTCAAATTGACCACATCAGGCAGATGGCGTATCAGATCTGCCAGTCAATAAATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000113240:ENST00000316308:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.013 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(12.3=100)
A:
NA
C2:
PF0006920=Pkinase=FE(17.7=100)
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:
AGCAGCTCGTTCAGAAATCCA
R:
TGAAATGGCAGAAAGCTGTTTTC
Band lengths:
180-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development