HsaINT0036437 @ hg19
Intron Retention
Gene
ENSG00000176444 | CLK2
Description
CDC-like kinase 2 [Source:HGNC Symbol;Acc:2069]
Coordinates
chr1:155238499-155239507:-
Coord C1 exon
chr1:155239279-155239507
Coord A exon
chr1:155238584-155239278
Coord C2 exon
chr1:155238499-155238583
Length
695 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
CCCCTGCCCCCCGACAGCAGCAC
3' ss Score
2.84
Exon sequences
Seq C1 exon
CAGTTATGATGATCGTTCGTCCGACCGGAGGGTGTATGACCGGCGATACTGTGGCAGCTACAGACGCAACGATTATAGCCGGGATCGGGGAGATGCCTACTATGACACAGACTATCGGCATTCCTATGAATATCAGCGGGAGAACAGCAGTTACCGCAGCCAGCGCAGCAGCCGGAGGAAGCACAGACGGCGGAGGAGGCGCAGCCGGACATTTAGCCGCTCATCTTCG
Seq A exon
GTGAGTGCCAGCCCAGGCCCTTCCTCTCCCCACTCTTCTGCAGGCCCTCTAGGACTCTGGTAAGTGAGCAGTATCCTTGTTCTCAGCTGAACATTGGGGCATGAACACTGAGGTGGGCACTGAGTTTGCCTACTTTCTTGGAAGCTCTCCGACTCTTGAAGGGCCCTGGATCTGCTTTGGAGATGGATGGGCACGGAGCATTTGTGACCCCCAGTGCTCTCCCTGGCATGTTGGGCTTATTGTGTTGGGAGCAGCTTCTCCGCCCCAGCGGCCTCCACTCTTTAATGGGGACCTTGCTTGTGAACTGCCTTTTTCCCCCAAGCCCTGGGCTCTGTAGCCCCCTTGGCAGGCGGGCTTGGGTGGGGGCAAGGGGAGATCTGTGTCTGCCCGGAAGGGCATTGTGTAGAGCATGGGGTTGTGGGTGACATTGGCAACAACACCACTTCTCTGCTCTGCCCATGCCTCTCCCTGTTCCTGTTTTGGGTTTGGGGACTTGGGATTATGCGCCGCTCTCTCTTCTCACACCGATCCACCTTACTGCATCTGACGTGTTCCCTTCCACTGTCCCCCATCATCGTCTGTCCCCCCTGGCTGGGCGCCTGTGACCGGTGACCCCTCTACCACCCACCCCGCCTCCCTCCGGCCCCCGCTCCGACACCTGGCTTGCTCCGACCCCCCCTGCCCCCCGACAGCAG
Seq C2 exon
CACAGCAGCCGGAGAGCCAAGAGTGTAGAGGACGACGCTGAGGGCCACCTCATCTACCACGTCGGGGACTGGCTACAAGAGCGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000176444-CLK2:NM_003993:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.796 A=NA C2=0.282
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
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTTATGATGATCGTTCGTCCGA
R:
CTCTTGTAGCCAGTCCCCGA
Band lengths:
310-1005
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)