clock (clock,clocka)


Basic Information

Item Value
gene id clock
gene name clock,clocka
gene type coding
species mexican tetra (Astyanax mexicanus)
category of species ornamental fish

Chromosome Information

Item Value
chromosome id NC_035899.1
NCBI id CM008302.1
chromosome length 74127438
location 64427104 ~ 64500676 (-)
genome version Astyanax_mexicanus-2.0_2017_mexican_tetra_Genome

Sequence

>XM_007259522.3
GCGCGGGGGGAGCCCGAGGTAGGCCCTGCTGTTTTTCTAACTCCAGTCAATCCAACGCGGCCATCTAAACCAAAACACGGAGAGAGAAATCCCCCGCAGCGGCGAGCGAGCGAGACTGAATACTGGAGCCGGTGTCCCTGATTTGGAGTGCAATTTAATGAAAATCTGGGGCAGTCATTTTTCAGCTTTCTCACTTTGAACAAGGTTGAAGATGCTGATTTGATGATCGATGAAAAAGAGCAACATTTCAAAAAATCATGACATAAAAGGGGGATGTTGCTGACATGCGTGTCGCATGCTTACACTCTTCGAAAAGCGTTTCCAGAATGCGCCTGCTACAAGGACCCACAATCCACTTTTGACCTTTAACCTAAAGACCTCCACTGAAACCTCTTCACTCAACTCCAGAAACACACGGACACGTCCTCCCCTCTCAAAGCTGATCTTCAGGACCTTCGTCCATTGGCAAGCTTCTGATCCTCTCTTTGGGCAGGCAGCGCTGGAGGTTTATGTACAAATGTCTACCTCACGCCTAAagctcctctctctcccactccaGCCCTGAACATACTACAAAATGACCTCCAGTATAGACCGggatGACAGCAGTATCTTTGATGGGTTGATGGAAGAAGATGAGAAGGACAAAGCAAAACGAGTTTCCAGGAACAAGTCAGAGAAGAAGAGGCGAGACCAGTTCAATGTGCTCATCAAGGAACTGGGCACCATGTTGCCGGGTAATACCCGCAAGATGGACAAATCAACGATCCTGCAGAAGAGCATTGACTTCCTGCGCAAGCACAAAGAAATTGCTGCGCAGTCAGAGTCCAGTGAAATCCGTCAGGACTGGAAGCCTCCTTTCCTCAGTAATGAGGAGTTTACACAGCTGATGCTGGAGGCACTAGATGGATTCTTTTTAGCCATCATGACTGACGGCAACATAATCTACGTCTCGGAGAGTGTGACCTCCTTATTAGAGCATTTACCGTCTGATTTGGTGGACCAGAACCTGTTGAATTTCCTTCCGCTGGGTGAGCACTCTGAAGTGTACAAAGCCCTCTCAACACACATACTGGAGGGAGAGAGTCACACACCAGACTACCTAAAAACGAAAAACCAGTTAGAGTTCTGCTGCCATATGCTCCGGGGCACCATCGACCCCAAAGAGCCTCCCGTCTATGAGTATGTCAAGTTCATTGGAAACTTCAAGTCCCTCAACAATGTGCCTAACTCTACACGGAACGGGTTCGAAGGTGTAATCCAGCGCTCGCTCAGACCCTCGTTTGAAGATCGTGTGTGTTTCATAGCAACTGTGAGGTTAGCCAAGCCTCAGTTTATTAAGGAGATGTGCACTGTGGAGGAACCCAATGAAGAGTTCACCTCCAGACACAGTTTAGAGTGGAAATTCCTCTTTCTCGACcacagGGCTCCACCTATTATCGGTTACCTACCTTTTGAGGTACTGGGCACGTCAGGCTATGACTACTATCACGTAGATGACCTGGAAACCCTAGCCAAGTGCCATGAACACTTGATGCAGTATGGGAAAGGGAAGTCATGTTATTACCGGTTCCTGACAAAAGGCCAGCAGTGGATTTGGCTTCAGACACACTACTACATCACCTACCATCAGTGGAACTCGCGGCCTGAGTTTATCGTCTGCACACACACCGTAGTAAGCTATGCTGAGGTTCGGGCTGAGCAGCGCAGAGAGCTGGGTATTGAGGAGTCGCCCCCTGAGATTACAGCAGATAAGTCTCAGGATTCTGAATCAGAATTGAACACCTCCAGCCTGAAGGAGGCACTGGAGCGATTTGATCACAGCCGCACCCCATCCGCCTCCTCCCGGAGCTCGCGCAAGTCCTCCTCTCACACTGCTGTGTCAGACCCTACATCCACCCAGACTAAGCTACAGACAGAGCGCAGCACGCCGCCTCGTCAGTCTGTCTCCACCATTGAGATGACCTCTCAGCGACGgtcctccatcagcagccagTCAATGAGCTCCCAGAACACAAGCCAGACAATGGCAGCATGTCTAGTATCTCAGCCCCAACAGCCTCAACAGCCCCAGCAGCTGCAGCCAACTgtacagCCGGTGCTGCAGTTCTCCACGCAGCTGGACGCCATGCAGCACCTAAAGGACCAGCTTGAACAGCGCACACGCATGATTGAGGCCAACATCCAGAGGCAGCAGGAGGAGCTGCGGCAGATccaggaggagctgcagagggtGCAGGGCCAGGGCTTACAGATGTTTCTGCAGCCCAGTGGCGGGAGTCTGAACCTTGGCTCGGTTCATTTGACACAAGGTTCCTCGGTACAGCCAGGGACTGCTCTGACCATGCAGGGTCAGGTGGTGCAAGCGGGCAGCTTACAAGGTGGCTTGACGTCCACACATGCGGGCACACAGCATGTTGTCACTCAACAGACCCAGCAAGCTCCACCTCAGCAACAGAACCTTCTCAGAGAGCAGAACGCCACACTCACACAGCCCCAGAGGTCGTCTCATACGTTGCAGTCTCCTCAGGGGGCTCTGCCAGCTTCTCTCTATAACACCATGATGATTTCCCAGCCAGGCCAGGCCAACGTGGTGCAGATCTCTACTAGTCTGGCCCAGAGCAGCCCCAGTGGAGCCGCAGTTGCAACCTTCTCTCAGGACCGTCAGATACGATTTCCAGCAGCCCCTCAGCTCCTCACCAAACTGGTGACGGGTCCTATGGCTTGTGGAGCAGTCATGGTGCCCACCACCATGTTCATGGGCCAGGTGGTGACAGCGTTTGCACCTCAGCAGGGCCAGACCCAGACCATCAGTATTGCCCAGCAGCCGCCTTTGTCGTCTCAGGAGCAGCAGGCTCAGTCGCAGGTAGCCGCCGCCCAGCAGCAGGGCCAAGCCCAGGCCCAGCTCACTCAGCAACAGGCGCAGTTCCTCCAGGCTCCTCGTCTTCTTCATGGCAACCAGTCAGCCCAGCTGATCCTCCAGGCAGCGTTTCCTTTACAGCAGCAGGGCACCTTTGCCACAACAACACAACAggcgcagcagcagcaacagcagcagcagcagcagcttcagcagcagcagcagcaacaacaacaacagcaacatcagcagcagcagcagcagcaacatcagcagcagcagcaacatcagcagcagcagcagcagcagcaacatcagcagcagcagcaacatcagcagcagcagcaacaactggcATCTCACAGGCTGGACAGCATGTCAGACCGCTCCAACGCACCTCCTCAGTAACCCAGCAGTGGCCAATCAGGCGGCAAGGACCGCACTGTATCTCCATTGCGTGGGGGTGGTGAGGGGAAGAGGTCAGCGTCAGTGCACGATAGAAGAATAGCAGTATTTGAACCATACCTGTTCTATGGTGAAGGGCAAGACCTAGAAGGGGTGTTCTTTTCACCCCATGCCCTACCTGCCTTTCCTCTCTGATCTCTGGCTGCTTGCACTGAATCCTGGGAAGCGTAGTCCTCGTGTGCTGAGCCATTCAGCTGGCAAGCAAGGAAACAGCACCCACTATTTCCGTCATCCGGTCAAGCTCCACTGGAGTAAAGGGGTGAGATGGGGCAAGGTTAGGTCAAGCTTCTCCTGCCCCCCCGGCCCCTCCCGCCCCAAGCCCTTTCTCCCTTTGTTTTGTATGCACGGTGTGTGCTGTCGTAATCACCCCTGCCCCTCACtattaatttatgcagaaaGCTCTGGTTCACAGGCTGGAGACGACGATTCTAGACTTCAGAGAAGTCCTACACGACGGATGACACCATGGTCATTTGTTCATCTTCTTATAgcttctttcctctctctctctctcttgttcctTTGTTTCTCCACACAGCTTGCTTTTTTTCATGTCAAAGTAATTATGGgtcagaaaatatttttaagaatgtcAAGTGGATTCAACTTTTATTGTACAGTACATCTgtaaaataatatgtaaatatatggacaaaaggaaagagaaactaatattttatattgatgcATGAGATGAAAAAGCGTAGTCTGTTATTTGTAGCTttgaatatacttttttttctagtattcaaaggaaaaaaaagaaaacgcactTAATGGCTGATACCTTCACGGACTTCCTTTTTTGCCGtggaggttgtgtgtgtgtatgtttgtgtgtatctgtgtgtgtaagtgtgcctGCAAAGCAGGCAGTGCTGGTTCTGCATAGTGTGTCACAGTTTGTTTAAACAGCACCTTCATGTTTTAGTAAAGCTGCAAAAGAAATAACAGTAATTTTAGAATTTTTACGGTTTAAtagaaatgtacatttattcaTCTCTGAAATGTACagatgttttttgtaaatatcgGAGTGAGCAGGCTGTGGTTTAGATGGAGATGTAGAGTAGAATAATATGGATTAAGTGgagtttttaaaccttttttttctgttttcagcaGCGTTGTAATTCATTACAGGAAAGGGAAACTGAGTGTAGATTATAGTACCTCATAATGGTttaatggtttcataagtagaTTATTGTTTATGTGTGCAGCCTTATTATGGTGAAGTGGAGAATGGCCACATACTatgtataatgtttaataatagaGATGAAATAATTACATGGTGCCAAGCCATAATTAGGGTTTCCACCAGTTTGACAGTGATATTTTAGATACAGATTTTAAACAACTTTAGTCTTACCAAACCAAACCTCATTGTTGCTAGTGAGTTTAGCATGCAAAACATGCATTTGCACAGCtttaatacattatatacagtatagtctttattttttcacttaGATGTAGAATCAGAAAGCTACAACCTAACATAAAACTACAACTTTAAGGACTTGGGCTGTCCTGTGTAAACAGTTTTGCCAGGAATGTACACTGTAGAGTAGTCATCGCACTTCTGTGGGCATCCCTAATCTGACCCACAGGAGAAGCCGTCTTTTGGAATAGACGTTAAAATTGACCCCTAGAGGTTAAAAAATCAAATACAAAGTTAAAAAGCtcccaaacaaaacaaatagcACTTAAATATCTATATAGCACTTTACATTTAGGTTTATTTACCTAATgcccaaacacaaacacatggtGACAACACTAAGTTACATTTCTGTTCTTACTGTTCTGTTCCAACAACACCTTACCTATGACCAGAgcaggtgctgtggtcagatcagTTTTTTAGTGCTTCACTTAGTGGAGATGCAGCATGAAGTTAGAATAGTTTTCCTGTTGCAGTAGGTGAGATTTAATGGCGTACAAAAATGATGACTCTCTTCCCTCCTGCTGCTTGCACTTTAGCTGTTATGAATGTCAGGGGGAAAGGGGAAAGGTCTAGTTTGCAAGGAGGTTGTGATGCCATCCTTGGTTTATAATTTGAAAGTATGGACAATCACAAATTTCAGTGTTAGCCAAACTAGGAactatttttttaccatttttaagaacaagaaattttatttttttgttatttaacccAAGTTTATTTTCGTTTAATCAACAATAGCACTTATAGATGTTTGATTaatcttttacttttattttttatacttttattctatagatttttttttttgatgatcttCTTGATAAGATGGccttttgtgtaaaataaactatattataatcATTGATTGATTAGACCTTTTTGAAGTCGGCATAGACCATAGACTAAGGATGCTTCTAGTCAGGTTAGTTTGAGCAGAAACGGGTTGCAATAATTTGTGTGTAATTCATATCAGACCTCAGCATCGCAGCACAGAACCGGTCCGAATGTTCCGCTTTCTCAGGATGAAAATGCCTCCAGACGTTTACAGCGCTGGTCCAATCACAGTTCACATTGCAGTATCCATCCAGTAGCAGAGCTACCCCAGTAGTTGTGCACAAAGATAAACGTATATAGGAAGTATGGTGATGGTAGTACAGGTAATCCGAAGCAGTCCCTTGGGATACTGTGGCCTTGCCAAGACAGACTAGTATGTTAGTCATTACTAGGGATGCATAATGATATGGGAATCATATTGGAATAAGGAAGAAATTGCTCGACaatattggtgtcagacagttgttacattttattttagtggATTCCTCCAACACTAGGAGGGCGAAGACCTGCACATGTCTTCTTAGTCAACTACTGCCTCTTTTTACTGGGTAgtcagtgcgctcggaggaaagcgcagcatctcaactctgatacatcagctaacagacacctgcgctgaccaacatcacactgggagtgatgtgggtatagagcgccatctactcacaCAGAGAGGGCAAGACCAAGCAGAATGATCCAATATCTGGCAACCCTCGAATCATAGAGGTAGTACTTTTGTGTAGATGTAACTTTAAGGTGACATGTTATACAAAAGTcactttttgtatgtttttctaTGTTCACTTTGGTCTCGACATCCGTTATAAACAATTTcagca

Function

symbol description
clocka Enables DNA-binding transcription factor activity, RNA polymerase II-specific. 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. Located in chromatin. Part of transcription regulator complex. 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).
clock Enables E-box binding activity and histone acetyltransferase activity. Involved in several processes, including DNA damage checkpoint signaling; cellular response to ionizing radiation; and regulation of gene expression. Acts upstream of or within positive regulation of transcription by RNA polymerase II. Located in chromosome; cytosol; and nucleoplasm. Part of transcription regulator complex. Implicated in Alzheimer's disease.

NR:

description
PREDICTED: circadian locomoter output cycles protein kaput

GO:

id name namespace
GO:0009266 response to temperature stimulus biological_process
GO:0032922 circadian regulation of gene expression biological_process
GO:0009648 photoperiodism biological_process
GO:0045893 positive regulation of transcription, DNA-templated biological_process
GO:0007165 signal transduction biological_process
GO:0005634 nucleus cellular_component
GO:0005667 transcription regulator complex cellular_component
GO:0005737 cytoplasm cellular_component
GO:0003677 DNA binding molecular_function
GO:0004871 obsolete signal transducer activity molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0046982 protein heterodimerization activity molecular_function

KEGG:

id description
K02223 CLOCK, KAT13D; circadian locomoter output cycles kaput protein

RNA

RNA id representative length rna type GC content exon number start site end site
XM_007259522.3 True 6460 mRNA 0.47 25 64427104 64500676

Neighbor

gene id symbol gene type direction distance location
kdr kdr coding downstream 56540 64335713 ~ 64370564 (-)
lnx1 lnx1,LOC107683953,LOC107665364 coding downstream 519439 63823872 ~ 63907665 (-)
sgcb sgcb,LOC107597442,LOC107665396,LOC107718388,LOC107601954,LOC107683993,LOC107755229 coding downstream 1062693 63357911 ~ 63364411 (-)
lrrc66 NA coding downstream 1070815 63335850 ~ 63356289 (-)
LOC103038514 LOC108414611 coding downstream 1307608 63114090 ~ 63119496 (-)
nmu nmu coding upstream 6283 64506959 ~ 64526668 (-)
cep135 cep135 coding upstream 105695 64606371 ~ 64626394 (-)
aasdh NA coding upstream 172839 64673515 ~ 64694914 (-)
ppat ppat,LOC107737308,LOC107683925,LOC107556156,LOC107721366,LOC107665312 coding upstream 201824 64702500 ~ 64719032 (-)
LOC103037239 NA coding upstream 251556 64752232 ~ 64762149 (-)
G30554 NA non-coding downstream 157450 64266410 ~ 64269654 (-)
G30502 NA non-coding downstream 282817 64141052 ~ 64144287 (-)
G30489 NA non-coding downstream 312597 64111726 ~ 64114507 (-)
G30477 NA non-coding downstream 373852 64052561 ~ 64053252 (-)
G30474 NA non-coding downstream 447741 63979064 ~ 63979363 (-)
G30597 NA non-coding upstream 27109 64527785 ~ 64528040 (-)
LOC111191943 NA non-coding upstream 66900 64567576 ~ 64571280 (-)
G30608 LOC107721360,LOC107665383,LOC107683916,LOC107556159 non-coding upstream 79698 64580374 ~ 64582695 (-)
G30598 exoc1 non-coding upstream 86777 64587453 ~ 64590755 (-)
G30804 NA non-coding upstream 220219 64720895 ~ 64832398 (-)
scfd2 scfd2 other downstream 663431 63528281 ~ 63763673 (-)
usp46 usp46 other downstream 942083 63433792 ~ 63485021 (-)
G30376 NA other downstream 1092258 63330044 ~ 63334846 (-)
fryl fryl,LOC107683942,LOC107665346 other downstream 1138996 63136951 ~ 63288108 (-)
LOC103043586 mark3b,LOC108412004,LOC107697167,LOC108258043 other downstream 2536375 61831841 ~ 61890729 (-)
LOC103036530 cyp2p7,cyp2j20,LOC108415355 other upstream 274008 64774684 ~ 64799176 (-)
trnad-guc_7 NA other upstream 592402 65093078 ~ 65093149 (-)
trnad-guc_8 NA other upstream 596926 65097602 ~ 65097673 (-)
LOC103031958 myo6 other upstream 2361789 66862465 ~ 67044318 (-)
G31424 NA other upstream 2923196 67423872 ~ 67432424 (-)

Expression


Co-expression Network