XLOC_000242 (clockb)


Basic Information

Item Value
gene id XLOC_000242
gene name clockb
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007112.7
NCBI id CM002885.2
chromosome length 59578282
location 19433004 ~ 19466453 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00000394
AAAGTAGGCCTGGCCTAAATGTTTTCATCCTTTTCGCTGCCGAAAATGCGCTCGATCGGCCGCCGAACGAAGCTAAAAAATGTCTAAACTGCGATATAAATAGCATTACGCTATCTGAAGGCGCATAGTGAGAGTGTGTGGTTTTTGCGCGACCAGAACGAGCTTCCGCTACGCCTCGAGAGTCATAAGGCCCGCTGACCCATATTCGCGGGAGCGCTCGAGGAAGTGCGCGCATGAAATTCACCATTGCATTTCTTATTATTGCACCACCGTGACTATTCATCGCAGCGCTGCATCGTGATTCACTGACCGAAGGAACTCCGACCTGACCGAGCATCTTTGTGGATGTACGTTCACATTGGCAGGTCCTCTTCACCAATGTCTTCCCAACGTGTGAGGCCTTTTTTATCGCCCGACTGATCCATGAGACCGAGTTATCATGAGCTCCAGAGACAGGGATGATGGCAGTATTTTTGATGGGCTCATGGAGGAAGATGAGAAAGATAAGGCGAAACGAGTTTCGAGGAATAAGTCGGAGAAGAAAAGGCGGGACCAGTTCAACGTCCTCATTAAAGAACTTGGGACCATGCTGCCTGGAAACACACGAAAGATGGACAAGTCTACGATTTTGCAAAAAAGCATAGACTACCTGCGCAAGAACAAAGAAAACGCTGCACAATCGGAATCGAGTGACATCAAGCAGGATTGGAAACCTCCGTTTCTCAGCAATGAGGAGTTTTCGCAGCTGATGCTGGAGgcACTGGATGGATTCTTCCTCGTGATGCTGACAGATGGATATATCATTTACATCTCAGAAAGCGTAACCTCTTTACTGGAGCATCTTCCTTCGGACCTTATGGATCAGAACCTTCTAAACTTTCTTCCAGTGGTGGATCATGGAGAAGTGTATAAAGCCCTTTCCTCACAACCAGACATTGAAAACCTCAACTCTGATTACCTCAAGTcCAAGAACCAGATGGAGTTTTGTTGTCACATGCTCAGAGGTTCTGTGGATCCCAAGAAACCGCCTGTATATGAATATGTTAAGTTTATCGGCAACTTTAAGTCACTTGTCAACATGCCTCAAAAAACCCGTAATGGCCTTGAGGGAATTCTGCAGCATTCGTTGCAGCCAGCCTTCGATGATCAACTCTGTTTTATTGCGACTGTGCGGCTTGCAAAGCCCCAATTCATCAAAGAAATGTGCATGGTGGAGGAGCCCAATGAAGAATTCACATCTCGACACAGTCTGGAGTGGAAGTTCCTTCTATTAGATCACAGAGCTCCACCTATCATTGGCTATATGCCGTTTGAGGTATTGGGAACATCAGGCTATGACTATTATCATGTAGATGACCTGCATTCACTGGCCAAATGCCATGAGCACTTAATGCAGTTTGGAAAAGGGAAGTCGTGCTATTATCGCTTTTTAACCAAAGGACAACAGTGGATTTGGCTCCAGACTAACTACTACATCACATACCACCAGTGGAACTCAAGGCCAGAGTTTATTGTGTGCACACACACTGTTGTCAGTTATGCTGAGGTGCGAgcagagaggaggagagagatgGGAATAGAGGAATCTCCTCCTGAACTCACAGCGGACAAGATATCTGGCTCTGAAACGCAGTTAAACAACAGTCTGAAGAAGGTACTAGAGCGTTTCAGTGACAGTCGCTCGCCCTCCACCTCCTCCAGGAGCTCACACAAGTCCTCACACACCGCCATCTCTGATAACACCTGCACATCAACACCTTCAAAGCTGCATATGGATGTGAGCAGTTCCCCTCGGCCTGCCACCGTGGATATGATATCACAGCGCCGCTCCTCTGTCAGCACACAGTCCATGAGTTCCCAGAACACCACTCAGACTGACTCTCCAGTCCAAATCAGCCAACAaacacaacatcaacaacaacaacctcAACAACCACAGCAGGTTCAGCCTAATGCTTTGTTCTCAGCACAGCTGAATGCGATGCAGCACCTGAAGGAGCAGCTGGAGCAAAGAACACGCATGATAGAAGCCAACATTCAAAAGCAGCAGGAGGAGCTGAGACAGATTCATGAGCAGCTGCAGAGAGTACAGGGAcctcagATGATCCTGCAGCAGCCGGCTCAGGGTGGTGGGCCTAGTGTGCTGTTGCCACAAGTTGGAGGAGCACAGAACAACATTTTAGGCATTGGGACTCAGGCTAGCGTTGTAGCGATACAGGGCCAAAATGTGACAAGTACAGCGCACAGCGGATCTGCTCCACAGCAGCAAACACTTCCACAGCAACAGACTCCTCGATCCCTGCAGCAGAATCTACAGAGCTCTTCTGTAACTCAGTGCGGTCCTGTGTATAATACCATGATGATCAGCCAACCTGCCAATGCCAATGTTGTGCAGATACCCAGCAATCTGGCACCGAAAATCAGTCAAGCCAATGCAATTAACAGGTTTCCAGCCGGGCAGCAGTTGGTCACAAAGATTGTGACGGCTCCAATGGCGTGTGGCGCAGTCATGGTGCCCACGTCGATGTTTATGGGTCAGGTGGTGACCGCGTACAGTCCGTTTACACAACAACAGGGTCAGACGCAGACCATAACACTGCAGACGCAGCCCACCGTGCCTGCAGACCAGCAGACTCAGGCTGCCACATTACAGAGTCAACAGCAGGGGGCGACACAGCAGTCAACAAAACAGCAGCAACCCTTTTTACAGAGCACACGTCTTCTCCATGGCAACCAGCCCACACAACTGATCCTGCAGGCTTTCCCTATTCAGCAGCAGAGCACATTTACTccatcacaacaacaacaacaacagcagcaactgAAACCACACACTCAGAAACCCCAGAAACAAACGGCCTCCTCTCATCAGACGGACAGCGCTAGTGCCCAGTCTCAGTAACGTGATTGGCCAATCATCGTCTCTTTATTGGTGCTGTAATAATCCAAAAGCTCTTACTATAAAAAGGGCAGCATTTTTCAGAAAAGGAACTCCCTCAACGTGGCAGCTGCGTGGAACACAACACCGCCAGATGGACACTGTGGCAACCGTGCGGAAACGCTTCACCCGACCGACAGGTGGTTGCCAAACTCATTATTTATTTCAACAACAGTGCGCATAGCATTGCTAGCCTTTTGCATGGTCTTTGCCAAACACAAACTCTCAATCTTTTCTCAGTCTTTCGCTGTAAACAGCCTAAAGAACTGAGTCTGTCTGTACAGTCTTGTGTACCATACCATGTAAATACACAACCGTAAAAGGAACAAAGCAAACTATTGAATATTTTATAAGCTGCA
>TCONS_00000395
GTAGGCCTGGCCTAAATGTTTTCATCCTTTTCGCTGCCGAAAATGCGCTCGATCGGCCGCCGAACGAAGCTAAAAAATGTCTAAACTGCGATATAAATAGCATTACGCTATCTGAAGGCGCATAGTGAGAGTGTGTGGTTTTTGCGCGACCAGAACGAGCTTCCGCTACGCCTCGAGAGTCATAAGGCCCGCTGACCCATATTCGCGGGAGCGCTCGAGGAAGTGCGCGCATGAAATTCACCATTGCATTTCTTATTATTGCACCACCGTGACTATTCATCGCAGCGCTGCATCGTGATTCACTGACCGAAGGAACTCCGACCTGACCGAGCATCTTTGTGGATGTACGTTCACATTGGCAGGTCCTCTTCACCAATGTCTTCCCAACGTGTGAGGCCTTTTTTATCGCCCGACTGATCCATGAGACCGAGTTATCATGAGCTCCAGAGACAGGGATGATGGCAGTATTTTTGATGGGCTCATGGAGGAAGATGAGAAAGATAAGGCGAAACGAGTTTCGAGGAATAAGTCGGAGAAGAAAAGGCGGGACCAGTTCAACGTCCTCATTAAAGAACTTGGGACCATGCTGCCTGGAAACACACGAAAGATGGACAAGTCTACGATTTTGCAAAAAAGCATAGACTACCTGCGCAAGAACAAAGGTGAGGCAAGAAATCATTTATGTTTTGTTTCACAATGTGTATTATAGCACAATTCAGCAGTCatctagaacagtggttcccaaagtgggcaTCTGAACAATAAGGAGGGGG
>TCONS_00000396
ACGTTCACATTGGCAGGTCCTCTTCACCAATGTCTTCCCAACGTGTGAGGCCTTTTTTATCGCCCGACTGATCCATGAGACCGAGTTATCATGAGCTCCAGAGACAGGGATGATGGCAGTATTTTTGATGGGCTCATGGAGGAAGATGAGAAAGATAAGGCGAAACGAGTTTCGAGGAATAAGTCGGAGAAGAAAAGGCGGGACCAGTTCAACGTCCTCATTAAAGAACTTGGGACCATGCTGCCTGGAAACACACGAAAGATGGACAAGTCTACGATTTTGCAAAAAAGCATAGACTACCTGCGCAAGAACAAAGAAAACGCTGCACAATCGGAATCGAGTGACATCAAGCAGGATTGGAAACCTCCGTTTCTCAGCAATGAGGAGTTTTCGCAGCTGATGCTGGAGgcACTGGATGGATTCTTCCTCGTGATGCTGACAGATGGATATATCATTTACATCTCAGAAAGCGTAACCTCTTTACTGGAGCATCTTCCTTCGGACCTTATGGATCAGAACCTTCTAAACTTTCTTCCAGTGGTGGATCATGGAGAAGTGTATAAAGCCCTTTCCTCACAACCAGACATTGAAAACCTCAACTCTGATTACCTCAAGTcCAAGAACCAGATGGAGTTTTGTTGTCACATGCTCAGAGGTTCTGTGGATCCCAAGAAACCGCCTGTATATGAATATGTTAAGTTTATCGGCAACTTTAAGTCACTTGTCAACATGCCTCAAAAAACCCGTAATGGCCTTGAGGGAATTCTGCAGCATTCGTTGCAGCCAGCCTTCGATGATCAACTCTGTTTTATTGCGACTGTGCGGCTTGCAAAGCCCCAATTCATCAAAGAAATGTGCATGGTGGAGGAGCCCAATGAAGAATTCACATCTCGACACAGTCTGGAGTGGAAGTTCCTTCTATTAGATCACAGAGCTCCACCTATCATTGGCTATATGCCGTTTGAGGTATTGGGAACATCAGGCTATGACTATTATCATGTAGATGACCTGCATTCACTGGCCAAATGCCATGAGCACTTAATGCAGTTTGGAAAAGGGAAGTCGTGCTATTATCGCTTTTTAACCAAAGGACAACAGTGGATTTGGCTCCAGACTAACTACTACATCACATACCACCAGTGGAACTCAAGGCCAGAGTTTATTGTGTGCACACACACTGTTGTCAGTTATGCTGAGGTGCGAgcagagaggaggagagagatgGGAATAGAGGAATCTCCTCCTGAACTCACAGCGGACAAGATATCTGGCTCTGAAACGCAGTTAAACAACAGTCTGAAGAAGGTACTAGAGCGTTTCAGTGACAGTCGCTCGCCCTCCACCTCCTCCAGGAGCTCACACAAGTCCTCACACACCGCCATCTCTGATAACACCTGCACATCAACACCTTCAAAGCTGCATATGGATGTGAGCAGTTCCCCTCGGCCTGCCACCGTGGATATGATATCACAGCGCCGCTCCTCTGTCAGCACACAGTCCATGAGTTCCCAGAACACCACTCAGACTGACTCTCCAGTCCAAATCAGCCAACAaacacaacatcaacaacaacaacctcAACAACCACAGCAGGTTCAGCCTAATGCTTTGTTCTCAGCACAGCTGAATGCGATGCAGCACCTGAAGGAGCAGCTGGAGCAAAGAACACGCATGATAGAAGCCAACATTCAAAAGCAGCAGGAGGAGCTGAGACAGATTCATGAGCAGCTGCAGAGAGTACAGGGAcctcagATGATCCTGCAGCAGCCGGCTCAGGGTGGTGGGCCTAGTGTGCTGTTGCCACAAGTTGGAGGAGCACAGAACAACATTTTAGGCATTGGGACTCAGGCTAGCGTTGTAGCGATACAGGGCCAAAATGTGACAAGTACAGCGCACAGCGGATCTGCTCCACAGCAGCAAACACTTCCACAGCAACAGACTCCTCGATCCCTGCAGCAGAATCTACAGAGCTCTTCTGTAACTCAGTGCGGTCCTGTGTATAATACCATGATGATCAGCCAACCTGCCAATGCCAATGTTGTGCAGATACCCAGCAATCTGGCACCGAAAATCAGTCAAGCCAATGCAATTAACAGGTTTCCAGCCGGGCAGCAGTTGGTCACAAAGATTGTGACGGCTCCAATGGCGTGTGGCGCAGTCATGGTGCCCACGTCGATGTTTATGGGTCAGGTGGTGACCGCGTACAGTCCGTTTACACAACAACAGGGTCAGACGCAGACCATAACACTGCAGACGCAGCCCACCGTGCCTGCAGACCAGCAGACTCAGGCTGCCACATTACAGAGTCAACAGCAGGGGGCGACACAGCAGTCAACAAAACAGCAGCAACCCTTTTTACAGAGCACACGTCTTCTCCATGGCAACCAGCCCACACAACTGATCCTGCAGGCTTTCCCTATTCAGCAGCAGAGCACATTTACTccatcacaacaacaacaacaacagcagcaactgAAACCACACACTCAGAAACCCCAGAAACAAACGGCCTCCTCTCATCAGACGGACAGCGCTAGTGCCCAGTCTCAGTAACGTGATTGGCCAATCATCGTCTCTTTATTGGTGCTGTAATAATCCAAAAGCTCTTACTATAAAAAGGGCAGCATTTTTCAGAAAAGGAACTCCCTCAACGTGGCAGCTGCGTGGAACACAACACCGCCAGATGGACACTGTGGCAACCGTGCGGAAACGCTTCACCCGACCGACAGGTGGTTGCCAAACTCATTATTTATTTCAACAACAGTGCGCATAGCATTGCTAGCCTTTTGCATGGTCTTTGCCAAACACAAACTCTCAATCTTTTCTCAGTCTTTCGCTGTAAACAGCCTAAAGAACTGAGTCTGTCTGTACAGTCTTGTGTACCATACCATGTAAATACACAACCGTAAAAGGAACAAAGCAAACTATTGAATATTTTATAAGCTGC
>TCONS_00000397
AGTTGGAGGAGCACAGAACAACATTTTAGGCATTGGGACTCAGGCTAGCGTTGTAGCGATACAGGGCCAAAATGTGACAAGTACAGCGCACAGCGGATCTGCTCCACAGCAGCAAACACTTCCACAGCAACAGACTCCTCGATCCCTGCAGCAGAATCTACAGAGCTCTTCTGTAACTCAGTGCGGTCCTGTGTATAATACCATGATGATCAGCCAACCTGCCAATGCCAATGTTGTGCAGATACCCAGCAATCTGGCACCGAAAATCAGTCAAGCCAATGCAATTAACAGGTTTCCAGCCGGGCAGCAGTTGGTCACAAAGATTGTGACGGCTCCAATGGCGTGTGGCGCAGTCATGGTGCCCACGTCGATGTTTATGGGTCAGGTGGTGACCGCGTACAGTCCGTTTACACAACAACAGGGTCAGACGCAGACCATAACACTGCAGACGCAGCCCACCGTGCCTGCAGACCAGCAGACTCAGGCTGCCACATTACAGAGTCAACAGCAGGGGGCGACACAGCAGTCAACAAAACAGCAGCAACCCTTTTTACAGGTAACAAAGTTCACACTGTAGTGGGGTTCAGTGACACGTGCATCACTTCCAACAGTAACACCCTGTTCTTAGCACTCGTTTTTATATTTGCCACATCTCAGTTTTGAGCGTAGCAGACGGATGCACTgggtaggcatgggctggtataagattctgacagtatgataaccttggataaaaatatcacggtttgatggtattgtgatcactgctctaaaatatgttctttttaaatgtctaagtaaaaaacaaaagctt
>TCONS_00000398
GTCTTGCCTATCTCAGGTTTCCAGCCGGGCAGCAGTTGGTCACAAAGATTGTGACGGCTCCAATGGCGTGTGGCGCAGTCATGGTGCCCACGTCGATGTTTATGGGTCAGGTGGTGACCGCGTACAGTCCGTTTACACAACAACAGGGTCAGACGCAGACCATAACACTGCAGACGCAGCCCACCGTGCCTGCAGACCAGCAGACTCAGGCTGCCACATTACAGAGTCAACAGCAGGGGGCGACACAGCAGTCAACAAAACAGCAGCAACCCTTTTTACAGAGCACACGTCTTCTCCATGGCAACCAGCCCACACAACTGATCCTGCAGGCTTTCCCTATTCAGCAGCAGAGCACATTTACTccatcacaacaacaacaacaacagcagcaactgAAACCACACACTCAGAAACCCCAGAAACAAACGGCCTCCTCTCATCAGACGGACAGCGCTAGTGCCCAGTCTCAGTAACGTGATTGGCCAATCATCGTCTCTTTATTGGTGCTGTAATAATCCAAAAGCTCTTACTATAAAAAGGGCAGCATTTTTCAGAAAAGGAACTCCCTCAACGTGGCAGCTGCGTGGAACACAACACCGCCAGATGGACACTGTGGCAACCGTGCGGAAACGCTT

Function

symbol description
clockb Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and E-box binding activity. Acts upstream of or within circadian rhythm and photoperiodism. Predicted to be located in cytoplasm and nucleus. Predicted to be part of CLOCK-BMAL transcription complex. Human ortholog(s) of this gene implicated in Alzheimer's disease. Orthologous to human CLOCK (clock circadian regulator).

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0032922 circadian regulation of gene expression biological_process
GO:0009648 photoperiodism biological_process
GO:0007623 circadian rhythm biological_process
GO:0009416 response to light stimulus biological_process
GO:0005634 nucleus cellular_component
GO:1990513 CLOCK-BMAL transcription complex cellular_component
GO:0005667 transcription regulator complex cellular_component
GO:0005737 cytoplasm cellular_component
GO:0005515 protein binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0000978 RNA polymerase II cis-regulatory region sequence-specific DNA binding molecular_function
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function
GO:0070888 E-box binding molecular_function
GO:0046983 protein dimerization activity molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-030408-2 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and E-box binding activity. Acts upstream of or within circadian rhythm and photoperiodism. Predicted to be located in cytoplasm and nucleus. Predicted to be part of CLOCK-BMAL transcription complex. Human ortholog(s) of this gene implicated in Alzheimer's disease. Orthologous to human CLOCK (clock circadian regulator).

Ensembl:

ensembl_id ENSDARG00000003631

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00000394 False 3297 mRNA 0.48 21 19433004 19466453
TCONS_00000395 False 773 lncRNA 0.48 4 19433007 19437677
TCONS_00000396 False 2947 mRNA 0.48 20 19434198 19466452
TCONS_00000397 False 814 lncRNA 0.48 3 19458980 19462463
TCONS_00000398 True 635 lncRNA 0.52 2 19461925 19466220

Neighbor

gene id symbol gene type direction distance location
XLOC_000241 tyrp1b coding upstream 86956 19332837 ~ 19346048 (+)
XLOC_000240 si:dkeyp-118a3.2 coding upstream 101472 19303241 ~ 19331532 (+)
XLOC_000239 NA coding upstream 168034 19253027 ~ 19264970 (+)
XLOC_000238 NA coding upstream 273719 19113197 ~ 19159285 (+)
XLOC_000237 ptpn9b coding upstream 320070 19094548 ~ 19112934 (+)
XLOC_000243 clrn2 coding downstream 48775 19515228 ~ 19517791 (+)
XLOC_000244 smc2 coding downstream 68667 19535120 ~ 19561801 (+)
XLOC_000245 fbxo10 coding downstream 135936 19602389 ~ 19632153 (+)
XLOC_000246 tmem192 coding downstream 183092 19649545 ~ 19665774 (+)
XLOC_000247 BX323590.2 coding downstream 239246 19705699 ~ 19705832 (+)
XLOC_000233 NA non-coding upstream 599561 18829172 ~ 18833443 (+)
XLOC_000230 NA non-coding upstream 1069133 18355746 ~ 18363871 (+)
XLOC_000228 NA non-coding upstream 1263904 18165117 ~ 18169100 (+)
XLOC_000250 NA non-coding downstream 341988 19808441 ~ 19821195 (+)
XLOC_000253 NA non-coding downstream 557479 20023932 ~ 20027926 (+)
XLOC_000254 NA non-coding downstream 560436 20026889 ~ 20029066 (+)
XLOC_000256 NA non-coding downstream 679952 20146405 ~ 20147549 (+)

Expression


Co-expression Network