HsaINT0036451 @ hg19
Intron Retention
Gene
ENSG00000179335 | CLK3
Description
CDC-like kinase 3 [Source:HGNC Symbol;Acc:2071]
Coordinates
chr15:74914461-74914901:+
Coord C1 exon
chr15:74914461-74914557
Coord A exon
chr15:74914558-74914834
Coord C2 exon
chr15:74914835-74914901
Length
277 bp
Sequences
Splice sites
5' ss Seq
GATGTACAG
5' ss Score
-3.25
3' ss Seq
CAATTTCTTTTCTCTCCTAGATG
3' ss Score
9.26
Exon sequences
Seq C1 exon
AGAAGCCAACAGAGCAGTAAGCGCAGCAGCCGGAGTGTGGAAGATGACAAGGAGGGTCACCTGGTGTGCCGGATCGGCGATTGGCTCCAAGAGCGAT
Seq A exon
GTACAGCCACCTTTCGTAAAACTTTACCTCTCTACTTTCTACCCCCCTTGTTAGACGAGACCTCTCCTGCCTGGAGGGGCCTCTAGTGCGCGTGGTGCCTTAGCGGGGCCACCAGTAATTGCCTGAATGACACAGACACTAGCAACTTCCATTTTTAAGAGTGTAGCAGTGAGAGAGAAACCTTTTTTGTTTTTGAGAATTTGAATGCTGTGAACTTGCAGGAGCTGCCAACCCCCTGCCCTCCAGATTCTCATGCCCAATTTCTTTTCTCTCCTAG
Seq C2 exon
ATGAGATTGTGGGGAACCTGGGTGAAGGCACCTTTGGCAAGGTGGTGGAGTGCTTGGACCATGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000179335-CLK3:NM_003992:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.412 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PU(2.6=24.2)
A:
NA
C2:
PF0006920=Pkinase=PU(26.2=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:
AGAAGCCAACAGAGCAGTAAGC
R:
CTGGCATGGTCCAAGCACTC
Band lengths:
164-441
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)