Gene
clocka
- ID
- ZDB-GENE-990630-14
- Name
- clock circadian regulator a
- Symbol
- clocka Nomenclature History
- Previous Names
- Type
- protein_coding_gene
- Location
- Chr: 20 Mapping Details/Browsers
- Description
- Enables DNA-binding transcription factor activity, RNA polymerase II-specific and molecular function activator activity. Contributes to DNA binding activity. Involved in positive regulation of transcription by RNA polymerase II. Acts upstream of or within several processes, including photoperiodism; primitive hemopoiesis; and regulation of gene expression. Part of CLOCK-BMAL transcription complex. Is active in chromatin. Is expressed in brain; head; ovary; and photoreceptor cell. Human ortholog(s) of this gene implicated in Alzheimer's disease. Orthologous to human CLOCK (clock circadian regulator).
- Genome Resources
- Note
- None
- Comparative Information
-
- All Expression Data
- 26 figures from 20 publications
- Cross-Species Comparison
- High Throughput Data
- Thisse Expression Data
- No data available
Wild Type Expression Summary
Phenotype Summary
Mutations
| Allele | Type | Localization | Consequence | Mutagen | Supplier |
|---|---|---|---|---|---|
| dg3 | Allele with one point mutation | Unknown | Missense | ENU | |
| ihb741 | Allele with one delins | Exon 12 | Unknown | CRISPR | |
| ihb742 | Allele with one deletion | Exon 12 | Unknown | CRISPR | |
| sa14713 | Allele with one point mutation | Unknown | Splice Site | ENU | |
| sa17257 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa23683 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa37017 | Allele with one point mutation | Unknown | Splice Site | ENU | |
| sa39276 | Allele with one point mutation | Unknown | Splice Site | ENU |
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Human Disease
Domain, Family, and Site Summary
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
|
892 | ||||||||
|
UniProtKB:A0A8M9PH45
|
891 |
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| Type | Name | Annotation Method | Has Havana Data | Length (nt) | Analysis |
|---|---|---|---|---|---|
| antisense |
ottdart00000059169
(1)
|
Ensembl | 3,722 nt | ||
| mRNA |
clocka-201
(1)
|
Ensembl | 3,424 nt | ||
| mRNA |
clocka-202
(1)
|
Ensembl | 6,535 nt |
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Interactions and Pathways
No data available
| Name | Type | Antigen Genes | Isotype | Host Organism | Assay | Source | Citations |
|---|---|---|---|---|---|---|---|
| Ab1-clock | polyclonal | IgG | Goat |
|
Santa Cruz Biotechnology, Inc.
|
3 |
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Plasmids
No data available
| Relationship | Marker Type | Marker | Accession Numbers | Citations |
|---|---|---|---|---|
| Contained in | BAC | CH211-278F21 | ZFIN Curated Data | |
| Encodes | cDNA | MGC:194542 | ZFIN Curated Data |
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| Type | Accession # | Sequence | Length (nt/aa) | Analysis |
|---|---|---|---|---|
| RNA | RefSeq:NM_130957 (1) | 3424 nt | ||
| Genomic | GenBank:BX088688 (1) | 179801 nt | ||
| Polypeptide | UniProtKB:Q5RIV1 (1) | 892 aa |
- Ding, H., Chen, X.C., Wan, L., Zhang, Y.Y., Rui, X.H., He, T., Liu, J., Shang, Z.B. (2024) Klebsiella pneumoniae alters zebrafish circadian rhythm via inflammatory pathways and is dependent on light cues. Heliyon. 10:e30829e30829
- Godino-Gimeno, A., Leal, E., Chivite, M., Tormos, E., Rotllant, J., Vallone, D., Foulkes, N.S., Míguez, J.M., Cerdá-Reverter, J.M. (2024) Role of melanocortin system in the locomotor activity rhythms and melatonin secretion as revealed by agouti-signalling protein (asip1) overexpression in zebrafish. Journal of pineal research. 76:e12939e12939
- Zebrafish Nomenclature Committee (2024) Nomenclature Data Curation (2024). Nomenclature Committee Submission.
- Aranda-Martínez, P., Fernández-Martínez, J., Ramírez-Casas, Y., Rodríguez-Santana, C., Rusanova, I., Escames, G., Acuña-Castroviejo, D. (2023) Chronodisruption and Loss of Melatonin Rhythm, Associated with Alterations in Daily Motor Activity and Mitochondrial Dynamics in Parkinsonian Zebrafish, Are Corrected by Melatonin Treatment. Antioxidants (Basel, Switzerland). 12(4):
- Cao, M., Xu, T., Zhang, H., Wei, S., Wang, H., Song, Y., Guo, X., Chen, D., Yin, D. (2023) BDE-47 Causes Depression-like Effects in Zebrafish Larvae via a Non-Image-Forming Visual Mechanism. Environmental science & technology. 57(26):9592-9602
- Chen, A.Q., Xue, M., Qiu, C.Z., Zhang, H.Y., Zhou, R., Zhang, L., Yin, Z.J., Ren, D.L. (2023) Circadian clock1a coordinates neutrophil recruitment via nfe212a/duox-reactive oxygen species pathway in zebrafish. Cell Reports. 42:113179113179
- Crnko, S., Printezi, M.I., Zwetsloot, P.M., Leiteris, L., Lumley, A.I., Zhang, L., Ernens, I., Jansen, T.P.J., Homsma, L., Feyen, D., van Faassen, M., du Pré, B.C., Gaillard, C.A.J.M., Kemperman, H., Oerlemans, M.I.F.J., Doevendans, P.A.F.M., May, A.M., Zuithoff, N.P.A., Sluijter, J.P.G., Devaux, Y., van Laake, L.W. (2023) The circadian clock remains intact, but with dampened hormonal output in heart failure. EBioMedicine. 91:104556104556
- Zhao, W., Mao, L., He, C., Ding, D., Hu, N., Song, X., Long, D. (2023) Effects of low dose radiation on behavior rhythm of zebrafish (Danio rerio). Ecotoxicology and environmental safety. 255:114779114779
- D'Agostino, Y., Frigato, E., Noviello, T.M.R., Toni, M., Frabetti, F., Cigliano, L., Ceccarelli, M., Sordino, P., Cerulo, L., Bertolucci, C., D'Aniello, S. (2022) Loss of circadian rhythmicity in bdnf knockout zebrafish larvae. iScience. 25:104054
- Dao, P., Hajny, S., Mekis, R., Orel, L., Dinhopl, N., Tessmar-Raible, K., Nowikovsky, K. (2022) The cation exchanger Letm1, circadian rhythms, and NAD(H) levels interconnect in diurnal zebrafish. Life science alliance. 5(9)
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