Gene

clocka

ID

ZDB-GENE-990630-14

Name

clock circadian regulator a

Symbol

clocka Nomenclature History

Previous Names

clk1 (1)
Clock1a (1)
clock
zCLOCK1 (1)
zfCLOCK1 (1)

Type

protein_coding_gene

Location

Chr: 20 Mapping Details/Browsers

Description

Exhibits DNA-binding transcription factor activity, RNA polymerase II-specific. Contributes to DNA binding activity. Involved in several processes, including photoperiodism; primitive hemopoiesis; and regulation of gene expression. Localizes to nuclear chromatin and transcription factor complex. Human ortholog(s) of this gene implicated in Alzheimer's disease. Is expressed in brain; head; ovary; and photoreceptor cell. Orthologous to human CLOCK (clock circadian regulator).

Genome Resources

Note

None

Comparative Information

Expression

All Expression Data

24 figures from 18 publications

Cross-Species Comparison

High Throughput Data

GEO (1)

Expression Atlas

UO scRNA-seq (UCSC browser)

Single Cell Expression Atlas

Daniocell

Thisse Expression Data

No data available

Wild Type Expression Summary

Phenotype

All Phenotype Data: 6 figures from 2 publications
Cross-Species Comparison: Alliance

Phenotype Summary

Mutations

Mutants

Sequence Targeting Reagents

Human Disease

Associated With clocka Human Ortholog

No data available

Associated With clocka Via Experimental Models

No data available

Gene Ontology

Protein Domains

Domain, Family, and Site Summary

Type	InterPro ID	Name
Domain	IPR000014	PAS domain
Domain	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Domain	IPR013767	PAS fold
Family	IPR001067	Nuclear translocator
Family	IPR047230	Circadian locomoter output cycles protein kaput-like
Homologous_superfamily	IPR035965	PAS domain superfamily
Homologous_superfamily	IPR036638	Helix-loop-helix DNA-binding domain superfamily
Repeat	IPR001610	PAC motif

Domain Details Per Protein

Protein	Length	Circadian locomoter output cycles protein kaput-like	Helix-loop-helix DNA-binding domain superfamily	Myc-type, basic helix-loop-helix (bHLH) domain	Nuclear translocator	PAC motif	PAS domain	PAS domain superfamily	PAS fold
UniProtKB:Q5RIV1 InterPro	892
UniProtKB:A0A8M9PH45 InterPro	891

Transcripts

Genome Browsers

Type	Name	Annotation Method	Length (nt)	Analysis
antisense	ottdart00000059169 (1) Ensembl	Ensembl	1,935 nt	Select Tool ZFIN BLAST
mRNA	clocka-201 (1) Ensembl	Ensembl	3,424 nt	Select Tool ZFIN BLAST
mRNA	clocka-202 (1) Ensembl	Ensembl	6,535 nt	Select Tool ZFIN BLAST

Interactions and Pathways

No data available

Antibodies

Name	Type	Antigen Genes	Isotype	Host Organism	Assay	Source	Citations
Ab1-clock	polyclonal	clocka	IgG	Goat	IHC WB	Santa Cruz Biotechnology, Inc.	3

Plasmids

No data available

Constructs

Marker Relationships

Sequences

Orthology

Comparative Orthology: Alliance
Gene Tree: Ensembl

Citations