HsaALTA0001924-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000176444 | CLK2
Description
CDC-like kinase 2 [Source:HGNC Symbol;Acc:2069]
Coordinates
chr1:155239279-155240768:-
Coord C1 exon
chr1:155240599-155240768
Coord A exon
chr1:155239505-155239507
Coord C2 exon
chr1:155239279-155239504
Length
3 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TGGTATTTGTTATCCAACAGCAG
3' ss Score
6.13
Exon sequences
Seq C1 exon
ATGCCGCATCCTCGAAGGTACCACTCCTCAGAGCGAGGCAGCCGGGGGAGTTACCGTGAACACTATCGGAGCCGAAAGCATAAGCGACGAAGAAGTCGCTCCTGGTCAAGTAGTAGTGACCGGACACGACGGCGTCGGCGAGAGGACAGCTACCATGTCCGTTCTCGAAG
Seq A exon
CAG
Seq C2 exon
TTATGATGATCGTTCGTCCGACCGGAGGGTGTATGACCGGCGATACTGTGGCAGCTACAGACGCAACGATTATAGCCGGGATCGGGGAGATGCCTACTATGACACAGACTATCGGCATTCCTATGAATATCAGCGGGAGAACAGCAGTTACCGCAGCCAGCGCAGCAGCCGGAGGAAGCACAGACGGCGGAGGAGGCGCAGCCGGACATTTAGCCGCTCATCTTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000176444-3-10,3-9-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.788
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTACCATGTCCGTTCTCGA
R:
ATCCCGGCTATAATCGTTGCG
Band lengths:
105-108
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- 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)