HsaINT0036433 @ hg19
Intron Retention
Gene
ENSG00000176444 | CLK2
Description
CDC-like kinase 2 [Source:HGNC Symbol;Acc:2069]
Coordinates
chr1:155234012-155234341:-
Coord C1 exon
chr1:155234259-155234341
Coord A exon
chr1:155234092-155234258
Coord C2 exon
chr1:155234012-155234091
Length
167 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
GTTCTGTTTTTGTTTCCCAGACC
3' ss Score
9.76
Exon sequences
Seq C1 exon
AGTTGGGCTGGTCACAGCCTTGTGATGTGTGGAGTATAGGCTGCATCATCTTTGAATACTATGTGGGATTCACCCTCTTCCAG
Seq A exon
GTAAGTGATGGGATGTCTTACTTGACTGCCTGGCATTCTTCTACCTGGTTCCTTTGTTTTCTGCTGAGGACCTGCCTACTCAGTTCTCCACATTGCCTGCCTTCCTGGCAGCTGATCCTTAGCATGCCCTTTTCAGTCCCATGCTCAGTTCTGTTTTTGTTTCCCAG
Seq C2 exon
ACCCATGACAACAGAGAGCATCTAGCCATGATGGAAAGGATCTTGGGTCCTATCCCTTCCCGGATGATCCGAAAGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000176444-CLK2:NM_003993:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(8.5=100)
A:
NA
C2:
PF0006920=Pkinase=FE(8.2=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:
ACAGCCTTGTGATGTGTGGAG
R:
ATCATCCGGGAAGGGATAGGAC
Band lengths:
138-305
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
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)