HsaINT0036438 @ hg19
Intron Retention
Gene
ENSG00000176444 | CLK2
Description
CDC-like kinase 2 [Source:HGNC Symbol;Acc:2069]
Coordinates
chr1:155238084-155238583:-
Coord C1 exon
chr1:155238499-155238583
Coord A exon
chr1:155238151-155238498
Coord C2 exon
chr1:155238084-155238150
Length
348 bp
Sequences
Splice sites
5' ss Seq
GATGTACAA
5' ss Score
-5.41
3' ss Seq
CCTGCTCTCTTTCATTTCAGATG
3' ss Score
12.66
Exon sequences
Seq C1 exon
CACAGCAGCCGGAGAGCCAAGAGTGTAGAGGACGACGCTGAGGGCCACCTCATCTACCACGTCGGGGACTGGCTACAAGAGCGAT
Seq A exon
GTACAAGCCAAATCGTAACAATCCTATAGCCTGTAATGGTCCCATAGCCATCCTAACGTCCCAAGCCAACCTGAGTCACAGCCTCTTGCCTTTTCTCAGTGGTGTTGTTTATCTGGGTGGTTTGAGTTGCTGTTGAGAATTGACCTCTGTTGTCCACTCCCAGCTCTCACGGCCCCTGGGTTAAAGGTGGTGGGAATCACGCAGGGGTTTTCTTCCCCTGTGACCATCTGTATCTGTTCCCCTTCCTTCATCTCCACCCCAGGTTGCTGTCCCCTTTTTTCTTCCAACTCAGCTCATTCCCCACCTTCTCTCCCTCCCTCTCCCCGACCCTGCTCTCTTTCATTTCAG
Seq C2 exon
ATGAAATCGTTAGCACCTTAGGAGAGGGGACCTTCGGCCGAGTTGTACAATGTGTTGACCATCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000176444-CLK2:NM_003993:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.282 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PU(0.1=0.0)
A:
NA
C2:
PF0006920=Pkinase=PU(6.9=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
- 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)