Dclk1 doublecortin-like kinase 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Dclk1provided by RGD
Full Name: doublecortin-like kinase 1provided by RGD
Primary source: RGD:68437
See related: EnsemblRapid:ENSRNOG00000032922 AllianceGenome:RGD:68437
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Ania4; Cpg16; Dcamkl1
Summary: This gene encodes a member of the protein kinase superfamily and the doublecortin family. The typical 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 protein is independent of its protein kinase activity. This gene is involved in several different cellular processes, including neuronal migration, retrograde transport, neuronal apoptosis and neurogenesis. Multiple transcript variants generated by two alternative promoter usage and alternative splicing have been found, but the full-length nature of the variant produced from the 5' promoter has not been determined. Current reference sequence data represents two alternatively spliced transcript variants produced from the 3' promoter and their protein products lack the doublecortin domain.[provided by RefSeq, Sep 2010]
Expression: Biased expression in Brain (RPKM 154.5), Spleen (RPKM 30.3) and 7 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 2q26

Exon count:: 20

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (141567215..141861088)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (139417234..139710956)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (144646255..144939389)

Chromosome 2 - NC_086020.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Intestinal microbiota profiles in a genetic model of colon tumorigenesis correlates with colon cancer biomarkers.
Title: Intestinal microbiota profiles in a genetic model of colon tumorigenesis correlates with colon cancer biomarkers.
Candidate plasticity gene 16 and jun dimerization protein 2 are involved in the suppression of insulin gene expression in rat pancreatic INS-1 beta-cells.
Title: Candidate plasticity gene 16 and jun dimerization protein 2 are involved in the suppression of insulin gene expression in rat pancreatic INS-1 β-cells.
These results suggest that CPG16 plays a role in the suppression of insulin gene expression in pancreatic beta-cells under glucotoxic conditions.
Title: Candidate plasticity gene 16 mediates suppression of insulin gene expression in rat insulinoma INS-1 cells under glucotoxic conditions.
Electrical stimulated-neurite outgrowth is regulated by MicroRNA-363-5p through targeting of DCLK1.
Title: Potential Mechanism of Neurite Outgrowth Enhanced by Electrical Stimulation: Involvement of MicroRNA-363-5p Targeting DCLK1 Expression in Rat.
The authors found that microtubule-binding protein doublecortin-like kinase 1 (DCLK1) labels a subset of dendritic microtubules and is required for KIF1-dependent dense-core vesicles (DCVs) trafficking into dendrites and dendrite development.
Title: Microtubule-binding protein doublecortin-like kinase 1 (DCLK1) guides kinesin-3-mediated cargo transport to dendrites.
Results do not support DCAMKL-1 as a putative neoplastic stem cell marker in colonic tumors co-expressing nuclear beta-catenin.
Title: Expression of LGR-5, MSI-1 and DCAMKL-1, putative stem cell markers, in the early phases of 1,2-dimethylhydrazine-induced rat colon carcinogenesis: correlation with nuclear β-catenin.
DCX+DCLK depletion alters the behavior of growth cones at substrate borders.
Title: A novel role for doublecortin and doublecortin-like kinase in regulating growth cone microtubules.
Metrnl, Dclk1 and Serpinb1a have been identified as genes that are induced during the latent process (LP) for cell differentiation with distinct temporal expression profiles and are required for subsequent neurite extension.
Title: Latent process genes for cell differentiation are common decoders of neurite extension length.
DCLK isoforms are present in the paraventricular hypothalamic nucleus and Edinger-Westphal nucleus of mammalian brain, where they mediate neuronal plasticity in stress-sensitive brain centers.
Title: Acute pain increases phosphorylation of DCLK-long in the Edinger-Westphal nucleus but not in the hypothalamic paraventricular nucleus of the rat.
The substrate specificity requirements of double cortin kinase-1 have been assessed, two potential regulatory domains have been identified, and evidence found for a possible activation loop-based mechanism.
Title: Catalytic and regulatory domains of doublecortin kinase-1.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

ha2752 (e-PCR)
- UniSTS:515593

BF387208 (e-PCR)
- UniSTS:244255

AI836758 (e-PCR)
- UniSTS:164207

RH139488 (e-PCR)
- UniSTS:221574

RH141097 (e-PCR)
- UniSTS:221574

RH137977 (e-PCR)
- UniSTS:220064

AA963194 (e-PCR)
- UniSTS:247993

RH140320 (e-PCR)
- UniSTS:222397

RH141428 (e-PCR)
- UniSTS:223422

RH138275 (e-PCR)
- UniSTS:220362

BE106390 (e-PCR)
- UniSTS:246247

Dclk1 (e-PCR), detects polymorphism
- UniSTS:515312

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables 3-phosphoinositide-dependent protein kinase activity	IEA Inferred from Electronic Annotation more info
enables AMP-activated protein kinase activity	IEA Inferred from Electronic Annotation more info
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables DNA-dependent protein kinase activity	IEA Inferred from Electronic Annotation more info
enables Rho-dependent protein serine/threonine kinase activity	IEA Inferred from Electronic Annotation more info
enables eukaryotic translation initiation factor 2alpha kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H2AS1 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H2AS121 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H2AT120 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H2AXS139 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H2BS14 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H2BS36 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3S10 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3S28 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3S57 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3T11 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3T3 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3T45 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3T6 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H4S1 kinase activity	IEA Inferred from Electronic Annotation more info
enables microtubule binding	IEA Inferred from Electronic Annotation more info
enables protein kinase activity	IDA Inferred from Direct Assay more info	PubMed
enables protein kinase activity	IEA Inferred from Electronic Annotation more info
enables protein kinase activity	ISO Inferred from Sequence Orthology more info
enables protein serine kinase activity	IEA Inferred from Electronic Annotation more info
enables protein serine/threonine kinase activity	IBA Inferred from Biological aspect of Ancestor more info
enables protein serine/threonine kinase activity	IEA Inferred from Electronic Annotation more info
enables ribosomal protein S6 kinase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in axon extension	IBA Inferred from Biological aspect of Ancestor more info
involved_in axon extension	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within axon extension	ISO Inferred from Sequence Orthology more info
involved_in axoneme assembly	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within axonogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within brain development	ISO Inferred from Sequence Orthology more info
involved_in central nervous system projection neuron axonogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within central nervous system projection neuron axonogenesis	ISO Inferred from Sequence Orthology more info
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
involved_in dendrite morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within dendrite morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in forebrain development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within forebrain development	ISO Inferred from Sequence Orthology more info
involved_in intracellular signal transduction	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of protein localization to nucleus	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of protein localization to nucleus	ISO Inferred from Sequence Orthology more info
involved_in neuron migration	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within neuron migration	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within peptidyl-serine phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in protein localization to nucleus	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein localization to nucleus	IEA Inferred from Electronic Annotation more info
acts_upstream_of protein localization to nucleus	ISO Inferred from Sequence Orthology more info
involved_in protein phosphorylation	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of postsynapse assembly	IEA Inferred from Electronic Annotation more info
involved_in regulation of postsynapse assembly	ISO Inferred from Sequence Orthology more info
involved_in response to virus	IEA Inferred from Electronic Annotation more info
involved_in response to virus	ISO Inferred from Sequence Orthology more info
involved_in retina development in camera-type eye	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in axon	IDA Inferred from Direct Assay more info	PubMed
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in glutamatergic synapse	IEA Inferred from Electronic Annotation more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
located_in growth cone	IDA Inferred from Direct Assay more info	PubMed
located_in neuron projection	IEA Inferred from Electronic Annotation more info
is_active_in postsynapse	ISO Inferred from Sequence Orthology more info
located_in postsynaptic density	IEA Inferred from Electronic Annotation more info
located_in postsynaptic density	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: serine/threonine-protein kinase DCLK1

Names: double cortin and calcium/calmodulin-dependent protein kinase-like 1; doublecortin-like and CAM kinase-like 1

NP_067595.1

EC 2.7.11.1

NP_445795.1

EC 2.7.11.1

XP_008759227.1

EC 2.7.11.1

XP_017446627.1

EC 2.7.11.1

XP_017446628.2

EC 2.7.11.1

XP_038959175.1

EC 2.7.11.1

XP_038959177.1

EC 2.7.11.1

XP_038959178.1

EC 2.7.11.1

XP_038959180.1

EC 2.7.11.1

XP_038959181.1

EC 2.7.11.1

XP_038959182.1

EC 2.7.11.1

XP_038959183.1

EC 2.7.11.1

XP_038959184.1

EC 2.7.11.1

XP_038959185.1

EC 2.7.11.1

XP_038959186.1

EC 2.7.11.1

XP_038959188.1

EC 2.7.11.1

XP_063138709.1

EC 2.7.11.1

XP_063138710.1

EC 2.7.11.1

NCBI Reference Sequences (RefSeq)

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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)

NM_021584.2 → NP_067595.1 serine/threonine-protein kinase DCLK1 isoform 2

See identical proteins and their annotated locations for NP_067595.1

Status: REVIEWED

Description

Transcript Variant: This variant (2) is produced from the 3' promoter. It lacks multiple 3' exons but has an alternate 3' exon, as compared to variant 1. The resulting isoform [2, also known as ania-4, or CARP (CaMK-related peptide)] is only 56 aa long and mainly consists of the serine/proline-rich domain.

Source sequence(s)

JAXUCZ010000002

UniProtKB/TrEMBL

Q9R1P9, Q9WVP7
NM_053343.3 → NP_445795.1 serine/threonine-protein kinase DCLK1 isoform 1

See identical proteins and their annotated locations for NP_445795.1

Status: REVIEWED

Description

Transcript Variant: Transcript Variant: This variant [1, also known as DCLK-short-A, DCK-beta2, KIAA0369-BL or cpg16 (candidate plasticity gene 16)] is produced from the 3' promoter. It encodes isoform 1, which contains a serine/proline-rich domain and a protein kinase domain.

Source sequence(s)

JAXUCZ010000002

UniProtKB/Swiss-Prot

O08875

UniProtKB/TrEMBL

A6JVF1, A6JVF3

Related

ENSRNOP00000076341.3, ENSRNOT00000093407.3

Conserved Domains (2) summary

smart00220
Location:83 → 340

S_TKc; Serine/Threonine protein kinases, catalytic domain

cd14095
Location:82 → 339

STKc_DCKL; Catalytic domain of the Serine/Threonine Kinase, Doublecortin-like kinase (also called Doublecortin-like and CAM kinase-like)

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086020.1 Reference GRCr8

Range

141567215..141861088

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039103249.2 → XP_038959177.1 serine/threonine-protein kinase DCLK1 isoform X2

UniProtKB/TrEMBL

A0A8I6AMY9

Conserved Domains (3) summary

cd14183
Location:399 → 666

STKc_DCKL1; Catalytic domain of the Serine/Threonine Kinase, Doublecortin-like kinase 1 (also called Doublecortin-like and CAM kinase-like 1)

cd17069
Location:182 → 265

DCX2; Dublecortin-like domain 2

cd17140
Location:55 → 143

DCX1_DCLK1; Dublecortin-like domain 1 found in doublecortin-like kinase 1 (DCLK1)
XM_039103254.2 → XP_038959182.1 serine/threonine-protein kinase DCLK1 isoform X7

UniProtKB/TrEMBL

A0A8I6AMY9

Conserved Domains (3) summary

cd14183
Location:399 → 666

STKc_DCKL1; Catalytic domain of the Serine/Threonine Kinase, Doublecortin-like kinase 1 (also called Doublecortin-like and CAM kinase-like 1)

cd17069
Location:182 → 265

DCX2; Dublecortin-like domain 2

cd17140
Location:55 → 143

DCX1_DCLK1; Dublecortin-like domain 1 found in doublecortin-like kinase 1 (DCLK1)
XM_039103247.2 → XP_038959175.1 serine/threonine-protein kinase DCLK1 isoform X1

UniProtKB/TrEMBL

A0A8I5ZWQ8, A0A8I6AMY9

Related

ENSRNOP00000083313.1, ENSRNOT00000107822.2

Conserved Domains (3) summary

cd14183
Location:399 → 666

STKc_DCKL1; Catalytic domain of the Serine/Threonine Kinase, Doublecortin-like kinase 1 (also called Doublecortin-like and CAM kinase-like 1)

cd17069
Location:182 → 265

DCX2; Dublecortin-like domain 2

cd17140
Location:55 → 143

DCX1_DCLK1; Dublecortin-like domain 1 found in doublecortin-like kinase 1 (DCLK1)
XM_017591139.3 → XP_017446628.2 serine/threonine-protein kinase DCLK1 isoform X5

UniProtKB/TrEMBL

A0A1W2Q6Q2, A0A8I6AMY9

Related

ENSRNOP00000090378.2, ENSRNOT00000099182.2

Conserved Domains (3) summary

cd14183
Location:383 → 650

STKc_DCKL1; Catalytic domain of the Serine/Threonine Kinase, Doublecortin-like kinase 1 (also called Doublecortin-like and CAM kinase-like 1)

cd17069
Location:182 → 265

DCX2; Dublecortin-like domain 2

cd17140
Location:55 → 143

DCX1_DCLK1; Dublecortin-like domain 1 found in doublecortin-like kinase 1 (DCLK1)
XM_039103250.2 → XP_038959178.1 serine/threonine-protein kinase DCLK1 isoform X3

UniProtKB/TrEMBL

A0A3Q9WS43, A0A8I6AMY9

Conserved Domains (3) summary

cd14183
Location:383 → 650

STKc_DCKL1; Catalytic domain of the Serine/Threonine Kinase, Doublecortin-like kinase 1 (also called Doublecortin-like and CAM kinase-like 1)

cd17069
Location:182 → 265

DCX2; Dublecortin-like domain 2

cd17140
Location:55 → 143

DCX1_DCLK1; Dublecortin-like domain 1 found in doublecortin-like kinase 1 (DCLK1)
XM_039103253.2 → XP_038959181.1 serine/threonine-protein kinase DCLK1 isoform X6

UniProtKB/TrEMBL

A0A8I6AMY9

Conserved Domains (3) summary

cd14183
Location:382 → 649

STKc_DCKL1; Catalytic domain of the Serine/Threonine Kinase, Doublecortin-like kinase 1 (also called Doublecortin-like and CAM kinase-like 1)

cd17069
Location:182 → 265

DCX2; Dublecortin-like domain 2

cd17140
Location:55 → 143

DCX1_DCLK1; Dublecortin-like domain 1 found in doublecortin-like kinase 1 (DCLK1)
XM_039103252.2 → XP_038959180.1 serine/threonine-protein kinase DCLK1 isoform X4

UniProtKB/TrEMBL

A0A8I6AMY9

Conserved Domains (3) summary

cd14183
Location:382 → 649

STKc_DCKL1; Catalytic domain of the Serine/Threonine Kinase, Doublecortin-like kinase 1 (also called Doublecortin-like and CAM kinase-like 1)

cd17069
Location:182 → 265

DCX2; Dublecortin-like domain 2

cd17140
Location:55 → 143

DCX1_DCLK1; Dublecortin-like domain 1 found in doublecortin-like kinase 1 (DCLK1)
XM_039103257.2 → XP_038959185.1 serine/threonine-protein kinase DCLK1 isoform X13

UniProtKB/TrEMBL

A0A0G2KB92, M0RDS3

Conserved Domains (2) summary

cd17069
Location:182 → 265

DCX2; Dublecortin-like domain 2

cd17140
Location:55 → 143

DCX1_DCLK1; Dublecortin-like domain 1 found in doublecortin-like kinase 1 (DCLK1)
XM_039103258.2 → XP_038959186.1 serine/threonine-protein kinase DCLK1 isoform X13

UniProtKB/TrEMBL

A0A0G2KB92, M0RDS3

Conserved Domains (2) summary

cd17069
Location:182 → 265

DCX2; Dublecortin-like domain 2

cd17140
Location:55 → 143

DCX1_DCLK1; Dublecortin-like domain 1 found in doublecortin-like kinase 1 (DCLK1)
XM_039103260.2 → XP_038959188.1 serine/threonine-protein kinase DCLK1 isoform X13

UniProtKB/TrEMBL

A0A0G2KB92, M0RDS3

Related

ENSRNOP00000075702.2, ENSRNOT00000078337.3

Conserved Domains (2) summary

cd17069
Location:182 → 265

DCX2; Dublecortin-like domain 2

cd17140
Location:55 → 143

DCX1_DCLK1; Dublecortin-like domain 1 found in doublecortin-like kinase 1 (DCLK1)
XM_063282640.1 → XP_063138710.1 serine/threonine-protein kinase DCLK1 isoform X14

UniProtKB/TrEMBL

Q9R1P9, Q9WVP7
XM_063282639.1 → XP_063138709.1 serine/threonine-protein kinase DCLK1 isoform X9
XM_017591138.3 → XP_017446627.1 serine/threonine-protein kinase DCLK1 isoform X8

UniProtKB/TrEMBL

A0A8L2QB01, A6JVF1
XM_008761005.4 → XP_008759227.1 serine/threonine-protein kinase DCLK1 isoform X11

Related

ENSRNOP00000019748.8, ENSRNOT00000019748.11

Conserved Domains (1) summary

cd14183
Location:76 → 343

STKc_DCKL1; Catalytic domain of the Serine/Threonine Kinase, Doublecortin-like kinase 1 (also called Doublecortin-like and CAM kinase-like 1)
XM_039103256.2 → XP_038959184.1 serine/threonine-protein kinase DCLK1 isoform X12
XM_039103255.2 → XP_038959183.1 serine/threonine-protein kinase DCLK1 isoform X10

UniProtKB/TrEMBL

A6JVF1

Conserved Domains (1) summary

cd14095
Location:81 → 338

STKc_DCKL; Catalytic domain of the Serine/Threonine Kinase, Doublecortin-like kinase (also called Doublecortin-like and CAM kinase-like)