Clock Gene in Animal Update: 2009.3.13 Site Map
Clock Gene Homolog
PERIOD CLOCK, NPAS2 ARNTL [BMAL] DEC, (cwo) Id1-4 NF1L3 [E4BP4] (vri)
DBP, (pdp1) NR1D1 [REV-ERB] RORA-C SIRT1-7 CRY, PHR TIM, (timeless)
GSK3 (sgg) CSNK1 CSNK2 BTRC (slmb) FBXL3 FBXL15 (jet)

PAS family except clock genes

SIM

Scientific name Gene GeneID Homologene Blink Protein
Homo sapiens SIM1 6492 3715 hs_SIM1 NP_005059
SIM2 6493 3716 hs_SIM2 NP_005060
Mus musculus Sim1 20464 3715 mm_SIM1 NP_035506
Sim2 20465 3716 mm_SIM2 NP_035507
Gallus gallus SIM1 396129 3715 gg_SIM1 XP_419817
SIM2 418515 3716 gg_SIM2 XP_416724
Xenopus tropicalis 266380 JGI:266380 - - 266380.txt
Xenopus laevis sim2-A 373634 - xl_SIM2 NP_001079101
Danio rerio sim1 260351 3715 dr_SIM1 NP_835740
sim2 114450 3716 dr_SIM2 NP_571911
Ciona intestinalis sim 778751 - ci_SIM XP_002119436
Branchiostoma floridae BF_265033 7217871 - bf_SIM*P XP_002216421
Strongylocentrotus purpuratus LOC577676 577676 - sp_SIM XP_782984
Apis mellifera sim 410669 - am_SIM XP_394146
Anopheles gambiae AGAP010058 1279488 3715 ag_SIM1*P XP_319213
AGAP000773 1272364 3716 ag_SIM2*P XP_311311
Drosophila melanogaster sim 41612 3716 dm_SIM NP_524340
Trichoplax adhaerens TA_56360 6753605 - ta_SIM XP_002112392

HIF1A (MOP1), EPAS1 (HLF, MOP2, HIF2A), HIF3A, sima

Scientific name Gene GeneID Homologene Blink Protein
Homo sapiens HIF1A 3091 1171 hs_HIF1A NP_001521
EPAS1 3091 1095 hs_EPAS1 NP_001421
HIF3A 64344 9646 hs_HIF3A NP_690007
Mus musculus Hif1a 15251 1171 mm_HIF1A NP_034561
Epas1 13819 1095 mm_EPAS1 NP_034267
Hif3a 53417 9646 mm_HIF3A NP_058564
Gallus gallus HIF1A 374177 1171 gg_HIF1A NP_989628
EPAS1 395596 1095 gg_EPAS1 NP_990138
Xenopus tropicalis hif1a =JGI:151770 496583 - xt_HIF1A Xentro_hif1a.txt
epas1 448117 - xt_EPAS1 NP_001005647
Xenopus laevis hif1a 380141 - xl_HIF1A NP_001080449
MGC80589 444145 - xl_EPAS1 NP_001085718
Danio rerio hif1ab (hif1a) 393202 1171 dr_HIF1AB NP_956527
LOC797150 797150 - dr_LOC797150 XP_001337610
epas1 555192 1095 dr_EPAS1 NP_001034895
wu:fd10h02 566886 - dr_LOC566886 XP_695262
hif1al(hif3a) 393376 9646 dr_HIF1AL NP_956699
Ciona intestinalis hif 778640 - ci_HIF NP_001071731
Branchiostoma floridae BF_208339 7224951 - bf_HIF1A XP_002209377
Strongylocentrotus purpuratus LOC577801 577801 - sp_HIF1A*P XP_783102
Apis mellifera hif1a 408852 - am_HIF1A XP_392382
Anopheles gambiae AGAP002941 1273024 43740 ag_SIMA*P XP_311962
Drosophila melanogaster sima 43580 43740 dm_SIMA NP_524584
Caenorhabditis elegans hif-1 180359 - ce_HIF-1 NP_508008
Nematostella vectensis v1g161959 5517926 - nv_EPAS1*P XP_001637921
Trichoplax adhaerens TA_62354 6759536 - ta_HIF XP_002118308

NPAS3 (MO,  trh (trachealess))

Scientific name Gene GeneID Homologene Blink Protein
Homo sapiens NPAS3 64067 8461 hs_NPAS3 NP_071406
Mus musculus NPAS3 27386 8461 mm_NPAS3 NP_038808
Gallus gallus NPAS3 423315 8461 gg_NPAS3 XP_421232
Xenopus tropicalis NPAS3 780104 8461 xt_NPAS3 NP_001072647
Xenopus laevis Not found - - - -
Danio rerio LOC570491 570491 8461 dr_NPAS3 XP_001919336
Ciona intestinalis trh 778784 - ci_TRH NP_001071842
Branchiostoma floridae BF_220692 7217491 - bf_NPAS3partial XP_002217049
Strongylocentrotus purpuratus LOC578593 578593 - sp_NPAS3 XP_783845
Apis mellifera trh (trachealess) 408389 - am_TRH XP_391937
Anopheles gambiae AGAP000056 1272221 116076 ag_TRH*P  XP_311103
Drosophila melanogaster trh(trachealess) 38065 116076 dm_TRH NP_001036575
Caenorhabditis elegans T01D3.2 179860 116076 ce_NPAS3 NP_506391
Nematostella vectensis v1g96877 5515802 - nv_NPAS3*P XP_001635848

AHR (arylhydrocarbon receptor), ss (spineless)

Scientific name Gene GeneID Homologene Blink Protein
Homo sapiens AHR 196 1224 hs_AHR NP_001612
Mus musculus Ahr 11622 1224 mm_AHR NP_038492
Gallus gallus AHR 373907 1224 gg_AHR NP_989449
Xenopus tropicalis ahr 613065 - xt_AHR*P AAV49749
Xenopus laevis ahr 398659 - xl_AHR NP_001082693
Danio rerio ahr1a 246224 - dr_AHR1A NP_571103
ahr1b 554265 1224 dr_AHR1B NP_001019987
ahr2 30517 - dr_AHR2 NP_571339
Ciona intestinalis ahr 778536 - ci_AHR NP_001071651
Branchiostoma floridae BF_111634 7238843 - bf_AHR XP_002249559
Strongylocentrotus purpuratus LOC575350 575350 - sp_AHR XP_780848
Apis mellifera GB11901 411264 - am_SS XP_394737
Anopheles gambiae AGAP010259 1279681 33517 ag_SS*P XP_319448
Drosophila melanogaster ss(spineless) 41988 33517 dm_SS NP_476748
Caenorhabditis elegans ahr-1 172788 33517 ce_AHR-1 NP_001021036
Nematostella vectensis v1g130163 5504475 - nv_AHR*P XP_001625385
v1g94229 5516813 - nv_SS*P XP_001636810
Trichoplax adhaerens TA_56431 6753637 - ta_AHR XP_002112424

ARNT, TGO (TANGO)

Scientific name Gene GeneID Homologene Blink Protein
Homo sapiens ARNT 405 1261 hs_ARNT NP_001659
ARNT2 9915 7230 hs_ARNT2 NP_055677
Mus musculus Arnt 11863 1261 mm_ARNT NP_001032826
Arnt2 11864 7230 mm_ARNT2 NP_031514
Gallus gallus ARNT 374026 1261 gg_ARNT NP_989531
ARNT2 415481 7230 gg_ARNT2 XP_413854
Xenopus tropicalis arnt 100144695 - xt_ARNT NP_001116925
arnt2 100101693 - xt_ARNT2 NP_001093686
Xenopus laevis arnt1 398241 - xl_ARNT1 NP_001082130
arnt2 399025 - xl_ARNT2 NP_001083622
Danio rerio arnt 493634 - dr_ARNT NP_001007790
arnt2 64277 7230 dr_ARNT2 NP_571749
Ciona intestinalis arnt 778541 - ci_ARNT NP_001071655
Branchiostoma floridae BF_124387 7241069 - bf_ARNT XP_002223593
Strongylocentrotus purpuratus LOC576033 576033 - sp_ARNT*P XP_781474
Apis mellifera GB17763 411234 - am_TGO XP_394708
Anopheles gambiae AGAP009748 1279156 1261 ag_TGO XP_318833
Drosophila melanogaster tgo (tango) 41084 1261 dm_TGO NP_731308
Caenorhabditis elegans aha-1 172889 1261 ce_AHA-1 NP_492687
Nematostella vectensis v1g116698 5508979 - nv_ARNT XP_001629530
Trichoplax adhaerens TA_14211 6751719 - ta_ARNT*P XP_002110504
NOTE: Listed genes have cirtain similarity to PEP, CLK and ARNTL. However, these are considered to be no clock gene.

Cladogram of PAS family
Phylogram of PAS family
List of PAS family sequencesfor ClustalW2 DND file for PAS family for TreeView

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