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CLK1 CDC like kinase 1 [ Homo sapiens (human) ]

Gene ID: 1195, updated on 7-Jun-2020

Summary

Official Symbol
CLK1provided by HGNC
Official Full Name
CDC like kinase 1provided by HGNC
Primary source
HGNC:HGNC:2068
See related
Ensembl:ENSG00000013441 MIM:601951
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
CLK; STY; CLK/STY
Summary
This gene encodes a member of the CDC2-like (or LAMMER) family of dual specificity protein kinases. In the nucleus, the encoded protein phosphorylates serine/arginine-rich proteins involved in pre-mRNA processing, releasing them into the nucleoplasm. The choice of splice sites during pre-mRNA processing may be regulated by the concentration of transacting factors, including serine/arginine rich proteins. Therefore, the encoded protein may play an indirect role in governing splice site selection. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jun 2009]
Expression
Ubiquitous expression in bone marrow (RPKM 96.5), lymph node (RPKM 51.9) and 25 other tissues See more
Orthologs

Genomic context

See CLK1 in Genome Data Viewer
Location:
2q33.1
Exon count:
14
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 2 NC_000002.12 (200853009..200864658, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (201717732..201729467, complement)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene BICD cargo adaptor 1 pseudogene 1 Neighboring gene RNA, 5S ribosomal pseudogene 115 Neighboring gene peptidylprolyl isomerase like 3 Neighboring gene RNA, U6 small nuclear 312, pseudogene Neighboring gene NGG1 interacting factor 3 like 1 Neighboring gene RNA, U6 small nuclear 762, pseudogene

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
ATP binding IEA
Inferred from Electronic Annotation
more info
 
non-membrane spanning protein tyrosine kinase activity TAS
Traceable Author Statement
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein serine/threonine kinase activity IDA
Inferred from Direct Assay
more info
PubMed 
protein serine/threonine/tyrosine kinase activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
peptidyl-serine phosphorylation IEA
Inferred from Electronic Annotation
more info
 
peptidyl-threonine phosphorylation IEA
Inferred from Electronic Annotation
more info
 
peptidyl-tyrosine phosphorylation IEA
Inferred from Electronic Annotation
more info
 
protein autophosphorylation IEA
Inferred from Electronic Annotation
more info
 
regulation of RNA splicing IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
cytoplasm IEA
Inferred from Electronic Annotation
more info
 
nucleus IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
dual specificity protein kinase CLK1
Names
CDC28/CDC2-like kinase
protein tyrosine kinase STY
NP_001155879.1
NP_004062.2

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001162407.1NP_001155879.1  dual specificity protein kinase CLK1 isoform 2

    See identical proteins and their annotated locations for NP_001155879.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site and upstream start codon, compared to variant 1. The resulting isoform (2) has a longer N-terminus, compared to isoform 1.
    Source sequence(s)
    AI251890, AK294295
    Consensus CDS
    CCDS54427.1
    UniProtKB/Swiss-Prot
    P49759
    Related
    ENSP00000394734.2, ENST00000434813.3
    Conserved Domains (2) summary
    smart00220
    Location:203519
    S_TKc; Serine/Threonine protein kinases, catalytic domain
    cd14213
    Location:190519
    PKc_CLK1_4; Catalytic domain of the Dual-specificity protein kinases, CDC-like kinases 1 and 4
  2. NM_004071.4NP_004062.2  dual specificity protein kinase CLK1 isoform 1

    See identical proteins and their annotated locations for NP_004062.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the shorter isoform (1).
    Source sequence(s)
    AI251890, BC031549, DA225472
    Consensus CDS
    CCDS2331.1
    UniProtKB/Swiss-Prot
    P49759
    Related
    ENSP00000326830.4, ENST00000321356.9
    Conserved Domains (1) summary
    cd14213
    Location:148477
    PKc_CLK1_4; Catalytic domain of the Dual-specificity protein kinases, CDC-like kinases 1 and 4

RNA

  1. NR_027855.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an alternate exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AI251890, BC028149, DA225472
    Related
    ENST00000432425.5
  2. NR_027856.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) retains several introns, compared to variant 1. The transcript is sufficiently abundant to represent as a RefSeq record; however, the variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AI251890, BC028573, DA225472, DB164846
    Related
    ENST00000473565.5

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000002.12 Reference GRCh38.p13 Primary Assembly

    Range
    200853009..200864658 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001024646.1: Suppressed sequence

    Description
    NM_001024646.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
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