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DCLK1 doublecortin like kinase 1 [ Homo sapiens (human) ]

Gene ID: 9201, updated on 12-Oct-2019

Summary

Official Symbol
DCLK1provided by HGNC
Official Full Name
doublecortin like kinase 1provided by HGNC
Primary source
HGNC:HGNC:2700
See related
Ensembl:ENSG00000133083 MIM:604742
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
CL1; DCLK; CLICK1; DCDC3A; DCAMKL1
Summary
This gene encodes a member of the protein kinase superfamily and the doublecortin family. The protein encoded by this gene contains two N-terminal doublecortin domains, which bind microtubules and regulate microtubule polymerization, a C-terminal serine/threonine protein kinase domain, which shows substantial homology to Ca2+/calmodulin-dependent protein kinase, and a serine/proline-rich domain in between the doublecortin and the protein kinase domains, which mediates multiple protein-protein interactions. The microtubule-polymerizing activity of the encoded protein is independent of its protein kinase activity. The encoded protein is involved in several different cellular processes, including neuronal migration, retrograde transport, neuronal apoptosis and neurogenesis. This gene is up-regulated by brain-derived neurotrophic factor and associated with memory and general cognitive abilities. Multiple transcript variants generated by two alternative promoter usage and alternative splicing have been reported, but the full-length nature and biological validity of some variants have not been defined. These variants encode different isoforms, which are differentially expressed and have different kinase activities.[provided by RefSeq, Sep 2010]
Expression
Biased expression in brain (RPKM 28.5), fat (RPKM 4.0) and 7 other tissues See more
Orthologs

Genomic context

See DCLK1 in Genome Data Viewer
Location:
13q13.3
Exon count:
21
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 13 NC_000013.11 (35768652..36131939, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (36342789..36705514, complement)

Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105370161 Neighboring gene long intergenic non-protein coding RNA 445 Neighboring gene uncharacterized LOC105370163 Neighboring gene nuclear-encoded mitochondrial tRNA-Gln (TTG) 10-1 Neighboring gene CCDC169-SOHLH2 readthrough Neighboring gene uncharacterized LOC107984604 Neighboring gene spermatogenesis and oogenesis specific basic helix-loop-helix 2

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?

Phenotypes

NHGRI GWAS Catalog

Description
A genome-wide association study of optic disc parameters.
NHGRI GWA Catalog
Genetic variants associated with breast size also influence breast cancer risk.
NHGRI GWA Catalog
Genome-wide association study of electrocardiographic and heart rate variability traits: the Framingham Heart Study.
NHGRI GWA Catalog
Genome-wide association study of the age of onset of childhood asthma.
NHGRI GWA Catalog
Genome-wide scan revealed that polymorphisms in the PNPLA3, SAMM50, and PARVB genes are associated with development and progression of nonalcoholic fatty liver disease in Japan.
NHGRI GWA Catalog
Identification, replication, and fine-mapping of Loci associated with adult height in individuals of african ancestry.
NHGRI GWA Catalog
Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
NHGRI GWA Catalog

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • KIAA0369

Gene Ontology Provided by GOA

Function Evidence Code Pubs
ATP binding IEA
Inferred from Electronic Annotation
more info
 
protein kinase activity TAS
Traceable Author Statement
more info
PubMed 
protein serine/threonine kinase activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
axon extension IEA
Inferred from Electronic Annotation
more info
 
central nervous system development TAS
Traceable Author Statement
more info
PubMed 
central nervous system projection neuron axonogenesis IEA
Inferred from Electronic Annotation
more info
 
dendrite morphogenesis IEA
Inferred from Electronic Annotation
more info
 
endosomal transport NAS
Non-traceable Author Statement
more info
PubMed 
forebrain development IEA
Inferred from Electronic Annotation
more info
 
intracellular signal transduction IEA
Inferred from Electronic Annotation
more info
 
negative regulation of protein localization to nucleus IEA
Inferred from Electronic Annotation
more info
 
nervous system development TAS
Traceable Author Statement
more info
PubMed 
neuron migration IEA
Inferred from Electronic Annotation
more info
 
peptidyl-serine phosphorylation IEA
Inferred from Electronic Annotation
more info
 
protein phosphorylation TAS
Traceable Author Statement
more info
PubMed 
response to virus IEP
Inferred from Expression Pattern
more info
PubMed 
Component Evidence Code Pubs
integral component of plasma membrane TAS
Traceable Author Statement
more info
PubMed 
postsynaptic density IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
serine/threonine-protein kinase DCLK1
Names
doublecortin domain-containing protein 3A
doublecortin-like and CAM kinase-like 1
NP_001182344.1
NP_001182345.1
NP_001182359.1
NP_001317000.1
NP_001317001.1
NP_004725.1
XP_016876336.1
XP_016876337.1

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_001195415.1NP_001182344.1  serine/threonine-protein kinase DCLK1 isoform 2

    See identical proteins and their annotated locations for NP_001182344.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2, also known as DCLK-short-B, DCK-beta1 or KIAA0369-BS) is produced from the 3' promoter. It lacks several 5' exons but has an alternate 5' exon, as compared to variant 1. The resulting isoform (2) has a shorter and different N-terminus, and lacks doublecortin domains, as compared to isoform 1.
    Source sequence(s)
    AK295777, AK311195, AL139083, AL157760
    Consensus CDS
    CCDS73561.1
    UniProtKB/Swiss-Prot
    O15075
    Related
    ENSP00000484452.1, ENST00000615680.4
    Conserved Domains (1) summary
    cd14183
    Location:76343
    STKc_DCKL1; Catalytic domain of the Serine/Threonine Kinase, Doublecortin-like kinase 1 (also called Doublecortin-like and CAM kinase-like 1)
  2. NM_001195416.2NP_001182345.1  serine/threonine-protein kinase DCLK1 isoform 3

    See identical proteins and their annotated locations for NP_001182345.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant [3, also known as DCLK-short-A, DCK-beta2, KIAA0369-BL or cpg16 (candidate plasticity gene 16)] is produced from the 3' promoter. It lacks several 5' exons but has an alternate 5' exon, and lacks a coding exon in the 3' region that results in a frame-shift, as compared to variant 1. The resulting isoform (3) has a shorter and different N-terminus and a longer and distinct C-terminus, and lacks doublecortin domains, as compared to isoform 1.
    Source sequence(s)
    AK299059, AK311195, AL139083, AL157760, BC152456
    Consensus CDS
    CCDS55895.1
    UniProtKB/Swiss-Prot
    O15075
    UniProtKB/TrEMBL
    B7Z5K4
    Related
    ENSP00000369223.1, ENST00000379893.5
    Conserved Domains (1) summary
    cd14183
    Location:76343
    STKc_DCKL1; Catalytic domain of the Serine/Threonine Kinase, Doublecortin-like kinase 1 (also called Doublecortin-like and CAM kinase-like 1)
  3. NM_001195430.2NP_001182359.1  serine/threonine-protein kinase DCLK1 isoform 4

    See identical proteins and their annotated locations for NP_001182359.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) is produced from the 3' promoter. It shares only one exon with variant 1, and encodes a 56 aa long isoform [4, also known as ania-4, or CARP (CaMK-related peptide)], which mainly consists of the serine/proline-rich domain.
    Source sequence(s)
    AL157760, BM682165
  4. NM_001330071.2NP_001317000.1  serine/threonine-protein kinase DCLK1 isoform 5

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) lacks an alternate exon in the 3' coding region, resulting in a frameshift compared to variant 1. Both variants 5 and 6 encode the same isoform (5), which is longer and has a distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AK295777, AL139083, AL157760, AL160392, BC152456, BM679448, DB453639, DC350316, HY138649
    Consensus CDS
    CCDS81762.1
    UniProtKB/Swiss-Prot
    O15075
    Related
    ENSP00000353846.3, ENST00000360631.7
    Conserved Domains (3) summary
    cd14183
    Location:383650
    STKc_DCKL1; Catalytic domain of the Serine/Threonine Kinase, Doublecortin-like kinase 1 (also called Doublecortin-like and CAM kinase-like 1)
    cd17069
    Location:182265
    DCX2; Dublecortin-like domain 2
    cd17140
    Location:55143
    DCX1_DCLK1; Dublecortin-like domain 1 found in doublecortin-like kinase 1 (DCLK1)
  5. NM_001330072.2NP_001317001.1  serine/threonine-protein kinase DCLK1 isoform 5

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) differs in the 5' UTR and lacks an alternate exon in the 3' coding region, resulting in a frameshift compared to variant 1. Both variants 5 and 6 encode the same isoform (5), which is longer and has a distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AK295777, AL139083, AL157760, BC152456, BM679448, DA154341, DC350316
    Consensus CDS
    CCDS81762.1
    UniProtKB/Swiss-Prot
    O15075
    Conserved Domains (3) summary
    cd14183
    Location:383650
    STKc_DCKL1; Catalytic domain of the Serine/Threonine Kinase, Doublecortin-like kinase 1 (also called Doublecortin-like and CAM kinase-like 1)
    cd17069
    Location:182265
    DCX2; Dublecortin-like domain 2
    cd17140
    Location:55143
    DCX1_DCLK1; Dublecortin-like domain 1 found in doublecortin-like kinase 1 (DCLK1)
  6. NM_004734.5NP_004725.1  serine/threonine-protein kinase DCLK1 isoform 1

    See identical proteins and their annotated locations for NP_004725.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1, also known as DCLK-long-B, DCK-alpha1 or KIAA0369AS) is produced from the 5' promoter. It encodes the isoform 1, which includes two doublecortin domains, a serine/proline-rich domain and a protein kinase domain.
    Source sequence(s)
    AK295777, AL139083, AL157760, AL160392, BC152456
    Consensus CDS
    CCDS9354.1
    UniProtKB/Swiss-Prot
    O15075
    Related
    ENSP00000255448.4, ENST00000255448.8
    Conserved Domains (3) summary
    cd14183
    Location:383650
    STKc_DCKL1; Catalytic domain of the Serine/Threonine Kinase, Doublecortin-like kinase 1 (also called Doublecortin-like and CAM kinase-like 1)
    cd17069
    Location:182265
    DCX2; Dublecortin-like domain 2
    cd17140
    Location:55143
    DCX1_DCLK1; Dublecortin-like domain 1 found in doublecortin-like kinase 1 (DCLK1)

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109.20190905

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000013.11 Reference GRCh38.p13 Primary Assembly

    Range
    35768652..36131939 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017020847.1XP_016876336.1  serine/threonine-protein kinase DCLK1 isoform X1

    Conserved Domains (3) summary
    cd14183
    Location:383650
    STKc_DCKL1; Catalytic domain of the Serine/Threonine Kinase, Doublecortin-like kinase 1 (also called Doublecortin-like and CAM kinase-like 1)
    cd17069
    Location:182265
    DCX2; Dublecortin-like domain 2
    cd17140
    Location:55143
    DCX1_DCLK1; Dublecortin-like domain 1 found in doublecortin-like kinase 1 (DCLK1)
  2. XM_017020848.1XP_016876337.1  serine/threonine-protein kinase DCLK1 isoform X2

    UniProtKB/TrEMBL
    Q5VZY9
    Related
    ENSP00000369222.4, ENST00000379892.4
    Conserved Domains (2) summary
    cd17069
    Location:182265
    DCX2; Dublecortin-like domain 2
    cd17140
    Location:55143
    DCX1_DCLK1; Dublecortin-like domain 1 found in doublecortin-like kinase 1 (DCLK1)
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