CLOCK (clock circadian regulator) - Rat Genome Database
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Gene: CLOCK (clock circadian regulator) Homo sapiens
Analyze
Symbol: CLOCK
Name: clock circadian regulator
RGD ID: 1348034
HGNC Page HGNC
Description: Exhibits E-box binding activity and histone acetyltransferase activity. Involved in several processes, including DNA damage checkpoint; cellular response to ionizing radiation; and regulation of gene expression. Localizes to several cellular components, including chromosome; cytosol; and nucleoplasm. Implicated in Alzheimer's disease.
Type: protein-coding
RefSeq Status: REVIEWED
Also known as: bHLHe8; circadian locomoter output cycles kaput protein; circadian locomoter output cycles protein kaput; class E basic helix-loop-helix protein 8; clock homolog; KAT13D; KIAA0334
RGD Orthologs
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl455,427,903 - 55,546,909 (-)EnsemblGRCh38hg38GRCh38
GRCh38455,427,903 - 55,547,138 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37456,294,070 - 56,413,076 (-)NCBIGRCh37GRCh37hg19GRCh37
GRCh37456,294,068 - 56,413,076 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36455,993,417 - 56,107,754 (-)NCBINCBI36hg18NCBI36
Build 34456,139,587 - 56,253,925NCBI
Celera453,800,517 - 53,915,033 (-)NCBI
Cytogenetic Map4q12NCBI
HuRef452,243,062 - 52,362,368 (-)NCBIHuRef
CHM1_1456,329,197 - 56,448,202 (-)NCBICHM1_1
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-epicatechin-3-O-gallate  (EXP)
(-)-epigallocatechin 3-gallate  (EXP)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (EXP,ISO)
2,2',5,5'-tetrachlorobiphenyl  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-amino-2-deoxy-D-glucopyranose  (ISO)
20-HETE  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
acrolein  (EXP)
aflatoxin B1  (ISO)
aldehydo-D-glucosamine  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (EXP)
ammonium chloride  (ISO)
amphetamine  (ISO)
Aroclor 1254  (ISO)
benzo[a]pyrene  (EXP,ISO)
benzo[b]fluoranthene  (ISO)
beta-D-glucosamine  (ISO)
beta-naphthoflavone  (ISO)
bezafibrate  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (ISO)
bromobenzene  (ISO)
butanal  (EXP)
cadmium dichloride  (ISO)
cannabidiol  (ISO)
cannabigerol  (ISO)
carbon nanotube  (ISO)
CGS-21680  (EXP)
cisplatin  (EXP)
clozapine  (EXP)
cocaine  (ISO)
crocidolite asbestos  (EXP)
DDE  (EXP)
decabromodiphenyl ether  (ISO)
dexamethasone  (EXP)
dibenz[a,h]anthracene  (ISO)
dichloromethane  (ISO)
doxorubicin  (EXP)
endosulfan  (ISO)
fluoxetine  (ISO)
folic acid  (ISO)
furan  (ISO)
gallic acid  (EXP)
gallocatechin  (EXP)
hexadecanoic acid  (ISO)
hydrogen peroxide  (EXP)
lead(0)  (EXP)
lead(2+)  (EXP)
manganese(II) chloride  (ISO)
melatonin  (ISO)
methylmercury chloride  (EXP)
N-nitrosodiethylamine  (ISO)
ozone  (EXP)
pentanal  (EXP)
perfluorooctanoic acid  (EXP)
phenethyl caffeate  (ISO)
phenobarbital  (ISO)
pirinixic acid  (ISO)
potassium chromate  (EXP)
rotenone  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
styrene  (ISO)
sunitinib  (EXP)
tamoxifen  (ISO)
tetrachloromethane  (ISO)
tetraphene  (ISO)
trichloroethene  (ISO)
triphenyl phosphate  (ISO)
valproic acid  (EXP)
vinclozolin  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Phenotype Annotations     Click to see Annotation Detail View

Human Phenotype
Dementia  (IAGP)
References

Additional References at PubMed
PMID:8125298   PMID:9205841   PMID:9576906   PMID:9779516   PMID:9989497   PMID:10198158   PMID:10864977   PMID:10973243   PMID:11018023   PMID:11337377   PMID:11439184   PMID:11441146  
PMID:11511917   PMID:11927136   PMID:11927173   PMID:12464098   PMID:12477932   PMID:12841365   PMID:12897057   PMID:12898572   PMID:14582141   PMID:14645221   PMID:14701732   PMID:14701734  
PMID:14702039   PMID:14750904   PMID:15331141   PMID:15475734   PMID:15489334   PMID:15572273   PMID:15578592   PMID:15905809   PMID:15917222   PMID:15952199   PMID:16024980   PMID:16125818  
PMID:16232160   PMID:16344560   PMID:16474406   PMID:16528748   PMID:16678094   PMID:17106427   PMID:17116390   PMID:17221848   PMID:17239050   PMID:17264841   PMID:17364575   PMID:17428266  
PMID:17469042   PMID:17516548   PMID:17551301   PMID:17696255   PMID:17701674   PMID:17848551   PMID:17948273   PMID:17994337   PMID:18029348   PMID:18071340   PMID:18228528   PMID:18283403  
PMID:18314271   PMID:18379422   PMID:18411297   PMID:18419323   PMID:18430226   PMID:18458078   PMID:18541547   PMID:18587630   PMID:18662547   PMID:18854154   PMID:18957941   PMID:18974966  
PMID:19224106   PMID:19274049   PMID:19296127   PMID:19328558   PMID:19347611   PMID:19470168   PMID:19505873   PMID:19605937   PMID:19693801   PMID:19714310   PMID:19839995   PMID:19846548  
PMID:19874574   PMID:19888304   PMID:19913121   PMID:19922678   PMID:19934327   PMID:19946213   PMID:19967263   PMID:20065968   PMID:20072116   PMID:20081528   PMID:20124474   PMID:20149345  
PMID:20174623   PMID:20180986   PMID:20364331   PMID:20368993   PMID:20370469   PMID:20396431   PMID:20551151   PMID:20554694   PMID:20560707   PMID:20600471   PMID:20628086   PMID:20653450  
PMID:20704703   PMID:20861012   PMID:20876123   PMID:20886252   PMID:20961464   PMID:20978934   PMID:21050724   PMID:21123577   PMID:21164265   PMID:21386998   PMID:21463335   PMID:21479263  
PMID:21628555   PMID:21659603   PMID:21714069   PMID:21734043   PMID:21773969   PMID:21873635   PMID:21898035   PMID:21960634   PMID:21980503   PMID:22003994   PMID:22080789   PMID:22193177  
PMID:22232930   PMID:22284746   PMID:22537959   PMID:22578325   PMID:22709985   PMID:22806005   PMID:22823872   PMID:22905804   PMID:22999556   PMID:23003921   PMID:23033538   PMID:23129285  
PMID:23131019   PMID:23160374   PMID:23183326   PMID:23221812   PMID:23229515   PMID:23242607   PMID:23395176   PMID:23496259   PMID:23527142   PMID:23546644   PMID:23555304   PMID:23584858  
PMID:23667531   PMID:23768840   PMID:23785138   PMID:23792158   PMID:23871470   PMID:23970287   PMID:24005054   PMID:24037774   PMID:24068320   PMID:24235147   PMID:24328727   PMID:24332565  
PMID:24510388   PMID:24597447   PMID:24636202   PMID:24789043   PMID:24818524   PMID:24821610   PMID:24824748   PMID:24892753   PMID:24905098   PMID:24919398   PMID:25070164   PMID:25309987  
PMID:25527757   PMID:25625359   PMID:25775462   PMID:25936801   PMID:25976934   PMID:26134245   PMID:26164627   PMID:26181468   PMID:26186194   PMID:26204460   PMID:26247999   PMID:26299356  
PMID:26370682   PMID:26374515   PMID:26390085   PMID:26453284   PMID:26496610   PMID:26553137   PMID:26690565   PMID:26739996   PMID:26850841   PMID:26923944   PMID:27173435   PMID:27335043  
PMID:27339606   PMID:27373683   PMID:27492458   PMID:27614897   PMID:27996307   PMID:28058089   PMID:28290876   PMID:28384165   PMID:28388406   PMID:28466652   PMID:28473536   PMID:28498393  
PMID:28514207   PMID:28514442   PMID:28645331   PMID:28780642   PMID:28853078   PMID:28899534   PMID:28903391   PMID:28985504   PMID:29064730   PMID:29180440   PMID:29196536   PMID:29271044  
PMID:29316898   PMID:29318394   PMID:29324865   PMID:29621412   PMID:29658882   PMID:29673458   PMID:29768442   PMID:29860109   PMID:29943823   PMID:29987050   PMID:30003419   PMID:30287810  
PMID:30530698   PMID:30569826   PMID:30695550   PMID:30696097   PMID:30728411   PMID:30804502   PMID:30843665   PMID:30943427   PMID:31099187   PMID:31155351   PMID:31195749   PMID:31252075  
PMID:31368374   PMID:31400146   PMID:31515488   PMID:31527239   PMID:31612734   PMID:31888385   PMID:32041778   PMID:32296183   PMID:32785234   PMID:33106415  


Genomics

Comparative Map Data
CLOCK
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl455,427,903 - 55,546,909 (-)EnsemblGRCh38hg38GRCh38
GRCh38455,427,903 - 55,547,138 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37456,294,070 - 56,413,076 (-)NCBIGRCh37GRCh37hg19GRCh37
GRCh37456,294,068 - 56,413,076 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36455,993,417 - 56,107,754 (-)NCBINCBI36hg18NCBI36
Build 34456,139,587 - 56,253,925NCBI
Celera453,800,517 - 53,915,033 (-)NCBI
Cytogenetic Map4q12NCBI
HuRef452,243,062 - 52,362,368 (-)NCBIHuRef
CHM1_1456,329,197 - 56,448,202 (-)NCBICHM1_1
Clock
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39576,357,715 - 76,452,675 (-)NCBIGRCm39mm39
GRCm38576,209,868 - 76,305,603 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl576,209,868 - 76,304,792 (-)EnsemblGRCm38mm10GRCm38
MGSCv37576,641,202 - 76,733,573 (-)NCBIGRCm37mm9NCBIm37
MGSCv36577,286,952 - 77,379,323 (-)NCBImm8
Celera573,483,631 - 73,569,902 (-)NCBICelera
Cytogenetic Map5C3.3NCBI
cM Map540.63NCBI
Clock
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21431,908,542 - 31,992,673 (+)NCBI
Rnor_6.0 Ensembl1434,446,616 - 34,502,218 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01434,418,226 - 34,502,218 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01434,233,721 - 34,289,468 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41434,218,472 - 34,258,054 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11434,218,471 - 34,258,054 (+)NCBI
Celera1431,247,422 - 31,293,707 (+)NCBICelera
Cytogenetic Map14p11NCBI
Clock
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544715,454,630 - 15,530,906 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544715,394,496 - 15,537,969 (+)NCBIChiLan1.0ChiLan1.0
CLOCK
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1474,954,284 - 75,071,210 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl475,018,898 - 75,066,726 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0468,391,310 - 68,509,813 (+)NCBIMhudiblu_PPA_v0panPan3
CLOCK
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1347,691,709 - 47,758,784 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11347,684,409 - 47,825,733 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Clock
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_00493648217,789,834 - 17,900,371 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLOCK
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl854,788,864 - 54,910,146 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1854,793,323 - 54,910,192 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2858,659,297 - 58,720,896 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CLOCK
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1713,015,198 - 13,134,741 (+)NCBI
ChlSab1.1 Ensembl713,051,454 - 13,127,240 (+)Ensembl
Clock
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476113,915,277 - 14,038,596 (+)NCBI

Position Markers
SHGC-50712  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37456,374,650 - 56,374,768UniSTSGRCh37
Build 36456,069,407 - 56,069,525RGDNCBI36
Celera453,876,717 - 53,876,835RGD
Cytogenetic Map4q12UniSTS
HuRef452,323,973 - 52,324,091UniSTS
STS-R80639  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37456,294,118 - 56,294,283UniSTSGRCh37
Build 36455,988,875 - 55,989,040RGDNCBI36
Celera453,795,975 - 53,796,140RGD
Cytogenetic Map4q12UniSTS
HuRef452,243,112 - 52,243,277UniSTS
GeneMap99-GB4 RH Map4349.44UniSTS
G16718  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37456,374,623 - 56,374,753UniSTSGRCh37
Build 36456,069,380 - 56,069,510RGDNCBI36
Celera453,876,690 - 53,876,820RGD
Cytogenetic Map4q12UniSTS
HuRef452,323,946 - 52,324,076UniSTS
G54151  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37456,296,827 - 56,296,997UniSTSGRCh37
Build 36455,991,584 - 55,991,754RGDNCBI36
Celera453,798,684 - 53,798,854RGD
Cytogenetic Map4q12UniSTS
HuRef452,245,820 - 52,245,990UniSTS
RH121148  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37456,308,472 - 56,308,760UniSTSGRCh37
Build 36456,003,229 - 56,003,517RGDNCBI36
Celera453,810,333 - 53,810,621RGD
Cytogenetic Map4q12UniSTS
HuRef452,257,470 - 52,257,758UniSTS
SHGC-106039  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37456,353,196 - 56,353,490UniSTSGRCh37
Build 36456,047,953 - 56,048,247RGDNCBI36
Celera453,854,917 - 53,855,211RGD
Cytogenetic Map4q12UniSTS
HuRef452,302,061 - 52,302,355UniSTS
SHGC-59220  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37456,294,989 - 56,295,088UniSTSGRCh37
Build 36455,989,746 - 55,989,845RGDNCBI36
Celera453,796,846 - 53,796,945RGD
Cytogenetic Map4q12UniSTS
HuRef452,243,983 - 52,244,082UniSTS
GeneMap99-GB4 RH Map4333.04UniSTS
Whitehead-RH Map4410.6UniSTS
NCBI RH Map4584.4UniSTS
SHGC-67841  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37456,298,773 - 56,298,915UniSTSGRCh37
Build 36455,993,530 - 55,993,672RGDNCBI36
Celera453,800,630 - 53,800,772RGD
Cytogenetic Map4q12UniSTS
HuRef452,247,766 - 52,247,908UniSTS
GeneMap99-GB4 RH Map4337.42UniSTS
NCBI RH Map4580.8UniSTS
PMC55343P8  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37412,642,181 - 12,642,255UniSTSGRCh37
GRCh371569,891 - 569,965UniSTSGRCh37
GRCh37MT9,342 - 9,416UniSTSGRCh37
Celera413,108,985 - 13,109,059UniSTS
Cytogenetic Map4q12UniSTS
HuRef411,978,471 - 11,978,545UniSTS

miRNA Target Status

Confirmed Target Of
miRNA GeneMature miRNAMethod NameResult TypeData TypeSupport TypePMID
MIR141hsa-miR-141-3pMirtarbaseexternal_infoLuciferase reporter assay//Reporter assayFunctional MTI15131085
MIR141hsa-miR-141-3pMirtarbaseexternal_infoNorthern blot//qRT-PCR//Western blotFunctional MTI16762633
MIR141hsa-miR-141-3pTarbaseexternal_infoReporter GenePOSITIVE
MIR141hsa-miR-141-3pMirecordsexternal_infoNANA15131085

Predicted Target Of
Summary Value
Count of predictions:3736
Count of miRNA genes:1223
Interacting mature miRNAs:1556
Transcripts:ENST00000309964, ENST00000381322, ENST00000435527, ENST00000479384, ENST00000506747, ENST00000506923, ENST00000508049, ENST00000509151, ENST00000511124, ENST00000513033, ENST00000513440
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system sensory system visual system adipose tissue appendage entire extraembryonic component pharyngeal arch
High
Medium 501 598 567 47 194 39 1090 403 914 128 939 745 20 141 776 1
Low 1936 2121 1159 577 1497 426 3266 1782 2816 290 521 868 155 1 1063 2012 5 2
Below cutoff 1 272 260 12 4 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001267843 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_004898 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005265787 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011534409 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011534410 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011534411 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017008854 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017008855 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_024454284 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB002332 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB005535 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB059556 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB061682 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC024243 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC069200 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC110372 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF011568 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF260318 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AH008440 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK096319 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK124437 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK223549 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK291708 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC040570 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC041878 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC126157 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC126159 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BX537616 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BX538337 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH471057 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DA658950 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EF015897 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HM626403 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HM626404 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENST00000309964   ⟹   ENSP00000308741
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl455,427,903 - 55,510,027 (-)Ensembl
RefSeq Acc Id: ENST00000381322   ⟹   ENSP00000370723
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl455,434,823 - 55,545,932 (-)Ensembl
RefSeq Acc Id: ENST00000435527   ⟹   ENSP00000396649
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl455,463,698 - 55,546,546 (-)Ensembl
RefSeq Acc Id: ENST00000479384
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl455,442,278 - 55,443,755 (-)Ensembl
RefSeq Acc Id: ENST00000506747
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl455,453,760 - 55,510,066 (-)Ensembl
RefSeq Acc Id: ENST00000506923
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl455,478,847 - 55,546,881 (-)Ensembl
RefSeq Acc Id: ENST00000508049
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl455,470,744 - 55,479,060 (-)Ensembl
RefSeq Acc Id: ENST00000509151
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl455,482,773 - 55,546,655 (-)Ensembl
RefSeq Acc Id: ENST00000511124
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl455,432,476 - 55,449,426 (-)Ensembl
RefSeq Acc Id: ENST00000513033
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl455,486,394 - 55,546,646 (-)Ensembl
RefSeq Acc Id: ENST00000513440   ⟹   ENSP00000426983
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl455,427,903 - 55,546,909 (-)Ensembl
RefSeq Acc Id: NM_001267843   ⟹   NP_001254772
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38455,427,903 - 55,545,932 (-)NCBI
GRCh37456,294,068 - 56,413,076 (-)NCBI
HuRef452,243,062 - 52,362,368 (-)NCBI
CHM1_1456,329,197 - 56,447,215 (-)NCBI
Sequence:
RefSeq Acc Id: NM_004898   ⟹   NP_004889
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38455,427,903 - 55,546,909 (-)NCBI
GRCh37456,294,068 - 56,413,076 (-)NCBI
Build 36455,993,417 - 56,107,754 (-)NCBI Archive
HuRef452,243,062 - 52,362,368 (-)NCBI
CHM1_1456,329,197 - 56,448,202 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005265787   ⟹   XP_005265844
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38455,430,420 - 55,546,655 (-)NCBI
GRCh37456,294,068 - 56,413,076 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011534409   ⟹   XP_011532711
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38455,430,420 - 55,536,758 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011534410   ⟹   XP_011532712
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38455,430,420 - 55,546,900 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011534411   ⟹   XP_011532713
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38455,430,420 - 55,546,559 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017008854   ⟹   XP_016864343
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38455,430,420 - 55,547,138 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017008855   ⟹   XP_016864344
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38455,430,420 - 55,481,267 (-)NCBI
Sequence:
RefSeq Acc Id: XM_024454284   ⟹   XP_024310052
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38455,430,420 - 55,545,855 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_004889   ⟸   NM_004898
- UniProtKB: O15516 (UniProtKB/Swiss-Prot),   Q53EU0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001254772   ⟸   NM_001267843
- UniProtKB: O15516 (UniProtKB/Swiss-Prot),   Q3ZCT4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005265844   ⟸   XM_005265787
- Peptide Label: isoform X1
- UniProtKB: O15516 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_011532712   ⟸   XM_011534410
- Peptide Label: isoform X1
- UniProtKB: O15516 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_011532713   ⟸   XM_011534411
- Peptide Label: isoform X1
- UniProtKB: O15516 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_011532711   ⟸   XM_011534409
- Peptide Label: isoform X1
- UniProtKB: O15516 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_016864343   ⟸   XM_017008854
- Peptide Label: isoform X1
- UniProtKB: O15516 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_016864344   ⟸   XM_017008855
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_024310052   ⟸   XM_024454284
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSP00000308741   ⟸   ENST00000309964
RefSeq Acc Id: ENSP00000370723   ⟸   ENST00000381322
RefSeq Acc Id: ENSP00000426983   ⟸   ENST00000513440
RefSeq Acc Id: ENSP00000396649   ⟸   ENST00000435527
Protein Domains
bHLH   PAC   PAS

Promoters
RGD ID:6867482
Promoter ID:EPDNEW_H6906
Type:initiation region
Name:CLOCK_4
Description:clock circadian regulator
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_H6907  EPDNEW_H6908  EPDNEW_H6909  
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh38455,545,933 - 55,545,993EPDNEW
RGD ID:6867484
Promoter ID:EPDNEW_H6907
Type:initiation region
Name:CLOCK_1
Description:clock circadian regulator
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_H6906  EPDNEW_H6908  EPDNEW_H6909  
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh38455,546,820 - 55,546,880EPDNEW
RGD ID:6867486
Promoter ID:EPDNEW_H6908
Type:initiation region
Name:CLOCK_2
Description:clock circadian regulator
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_H6906  EPDNEW_H6907  EPDNEW_H6909  
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh38455,547,105 - 55,547,165EPDNEW
RGD ID:6867488
Promoter ID:EPDNEW_H6909
Type:initiation region
Name:CLOCK_3
Description:clock circadian regulator
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_H6906  EPDNEW_H6907  EPDNEW_H6908  
Experiment Methods:Single-end sequencing.; Paired-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh38455,547,481 - 55,547,541EPDNEW
RGD ID:6802128
Promoter ID:HG_KWN:48273
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:CD4+TCell,   CD4+TCell_12Hour,   HeLa_S3,   K562,   Lymphoblastoid,   NB4
Transcripts:UC003HAZ.1
Position:
Human AssemblyChrPosition (strand)Source
Build 36456,106,729 - 56,107,229 (-)MPROMDB
RGD ID:6802130
Promoter ID:HG_KWN:48274
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:CD4+TCell,   CD4+TCell_12Hour,   CD4+TCell_2Hour,   HeLa_S3,   Jurkat,   K562,   Lymphoblastoid,   NB4
Transcripts:OTTHUMT00000219981,   OTTHUMT00000317146
Position:
Human AssemblyChrPosition (strand)Source
Build 36456,107,526 - 56,108,026 (-)MPROMDB

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 4p13-q13.1(chr4:44356201-62245882)x3 copy number gain See cases [RCV000050683] Chr4:44356201..62245882 [GRCh38]
Chr4:44358218..63111600 [GRCh37]
Chr4:44052975..62794195 [NCBI36]
Chr4:4p13-q13.1
pathogenic
GRCh38/hg38 4q12-13.2(chr4:51831622-66991489)x3 copy number gain See cases [RCV000051771] Chr4:51831622..66991489 [GRCh38]
Chr4:52697788..67857207 [GRCh37]
Chr4:52392545..67539802 [NCBI36]
Chr4:4q12-13.2
pathogenic
GRCh38/hg38 4q12-22.3(chr4:51831622-97505618)x3 copy number gain See cases [RCV000051772] Chr4:51831622..97505618 [GRCh38]
Chr4:52697788..98426769 [GRCh37]
Chr4:52392545..98645792 [NCBI36]
Chr4:4q12-22.3
pathogenic
GRCh38/hg38 4q12-13.1(chr4:51899860-59984479)x3 copy number gain See cases [RCV000051773] Chr4:51899860..59984479 [GRCh38]
Chr4:52766026..60850197 [GRCh37]
Chr4:52460783..60532792 [NCBI36]
Chr4:4q12-13.1
pathogenic
GRCh38/hg38 4q12-13.1(chr4:52639018-59984479)x1 copy number loss See cases [RCV000053265] Chr4:52639018..59984479 [GRCh38]
Chr4:53505185..60850197 [GRCh37]
Chr4:53199942..60532792 [NCBI36]
Chr4:4q12-13.1
pathogenic
GRCh38/hg38 4q12-13.1(chr4:54198601-62270115)x1 copy number loss See cases [RCV000053266] Chr4:54198601..62270115 [GRCh38]
Chr4:55064768..63135833 [GRCh37]
Chr4:54759525..62818428 [NCBI36]
Chr4:4q12-13.1
pathogenic
GRCh37/hg19 4q12(chr4:56225485-56300646)x1 copy number loss See cases [RCV000240144] Chr4:56225485..56300646 [GRCh37]
Chr4:4q12
uncertain significance
GRCh37/hg19 4p16.3-q35.2(chr4:12440-190904441)x3 copy number gain See cases [RCV000446653] Chr4:12440..190904441 [GRCh37]
Chr4:4p16.3-q35.2
pathogenic
GRCh37/hg19 4p16.3-q35.2(chr4:68346-190957473) copy number gain See cases [RCV000510453] Chr4:68346..190957473 [GRCh37]
Chr4:4p16.3-q35.2
pathogenic
GRCh37/hg19 4p16.3-q13.1(chr4:68345-66440622)x3 copy number gain See cases [RCV000511193] Chr4:68345..66440622 [GRCh37]
Chr4:4p16.3-q13.1
pathogenic
GRCh37/hg19 4p16.3-q35.2(chr4:68346-190957473)x3 copy number gain See cases [RCV000512241] Chr4:68346..190957473 [GRCh37]
Chr4:4p16.3-q35.2
pathogenic
GRCh37/hg19 4p16.3-q35.2(chr4:49450-190915650)x3 copy number gain not provided [RCV000743155] Chr4:49450..190915650 [GRCh37]
Chr4:4p16.3-q35.2
pathogenic
GRCh37/hg19 4p16.3-q35.2(chr4:49450-190963766)x3 copy number gain not provided [RCV000743156] Chr4:49450..190963766 [GRCh37]
Chr4:4p16.3-q35.2
pathogenic
GRCh37/hg19 4p16.3-q35.2(chr4:11525-191028879)x3 copy number gain not provided [RCV000743147] Chr4:11525..191028879 [GRCh37]
Chr4:4p16.3-q35.2
pathogenic
NM_004898.4(CLOCK):c.704G>A (p.Gly235Glu) single nucleotide variant not provided [RCV000900998] Chr4:55458980 [GRCh38]
Chr4:56325147 [GRCh37]
Chr4:4q12
likely benign
NM_004898.4(CLOCK):c.1206+10T>C single nucleotide variant not provided [RCV000965674] Chr4:55453044 [GRCh38]
Chr4:56319211 [GRCh37]
Chr4:4q12
benign
NM_004898.4(CLOCK):c.674-10A>G single nucleotide variant not provided [RCV000893550] Chr4:55459020 [GRCh38]
Chr4:56325187 [GRCh37]
Chr4:4q12
benign
NM_004898.4(CLOCK):c.1367C>T (p.Pro456Leu) single nucleotide variant not provided [RCV000896503] Chr4:55449478 [GRCh38]
Chr4:56315645 [GRCh37]
Chr4:4q12
likely benign
NM_004898.4(CLOCK):c.256+5A>T single nucleotide variant not provided [RCV000969357] Chr4:55478810 [GRCh38]
Chr4:56344977 [GRCh37]
Chr4:4q12
likely benign
NM_004898.4(CLOCK):c.102G>A (p.Ala34=) single nucleotide variant not provided [RCV000894322] Chr4:55479645 [GRCh38]
Chr4:56345812 [GRCh37]
Chr4:4q12
benign
GRCh37/hg19 4q12(chr4:56366390-56436379)x3 copy number gain not provided [RCV000849827] Chr4:56366390..56436379 [GRCh37]
Chr4:4q12
uncertain significance
NM_004898.4(CLOCK):c.303A>G (p.Lys101=) single nucleotide variant not provided [RCV000942447] Chr4:55476008 [GRCh38]
Chr4:56342175 [GRCh37]
Chr4:4q12
likely benign
NM_004898.4(CLOCK):c.1584C>T (p.Asp528=) single nucleotide variant not provided [RCV000883169] Chr4:55444741 [GRCh38]
Chr4:56310908 [GRCh37]
Chr4:4q12
likely benign
NM_004898.4(CLOCK):c.699T>C (p.Phe233=) single nucleotide variant not provided [RCV000956214] Chr4:55458985 [GRCh38]
Chr4:56325152 [GRCh37]
Chr4:4q12
benign

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:2082 AgrOrtholog
COSMIC CLOCK COSMIC
Ensembl Genes ENSG00000134852 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSP00000308741 UniProtKB/Swiss-Prot
  ENSP00000370723 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSP00000396649 UniProtKB/TrEMBL
  ENSP00000426983 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENST00000309964 UniProtKB/Swiss-Prot
  ENST00000381322 ENTREZGENE, UniProtKB/Swiss-Prot
  ENST00000435527 UniProtKB/TrEMBL
  ENST00000513440 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 4.10.280.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
GTEx ENSG00000134852 GTEx
HGNC ID HGNC:2082 ENTREZGENE
Human Proteome Map CLOCK Human Proteome Map
InterPro bHLH_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HLH_DNA-bd_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nuc_translocat UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PAC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PAS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PAS-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PAS_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report hsa:9575 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 9575 ENTREZGENE
OMIM 601851 OMIM
Pfam HLH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PAS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB PA26609 PharmGKB
PRINTS NCTRNSLOCATR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE BHLH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PAS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART HLH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PAC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PAS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47459 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF55785 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt C9JK03_HUMAN UniProtKB/TrEMBL
  CLOCK_HUMAN UniProtKB/Swiss-Prot, ENTREZGENE
  Q3ZCT4 ENTREZGENE, UniProtKB/TrEMBL
  Q53EU0 ENTREZGENE, UniProtKB/TrEMBL
  Q8N757_HUMAN UniProtKB/TrEMBL
  Q8TAB0_HUMAN UniProtKB/TrEMBL
UniProt Secondary A0AV01 UniProtKB/Swiss-Prot
  A2I2N9 UniProtKB/Swiss-Prot
  O14516 UniProtKB/Swiss-Prot
  Q9UIT8 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-12-12 CLOCK  clock circadian regulator    clock homolog (mouse)  Symbol and/or name change 5135510 APPROVED