Table 7. Late-repressed genes: Time-course Profiles.

Genes under the control of phyA that are repressed by far-red light (FRc) within 3 to 24 hours. Click on Accession number to view complete, 24-hour time-course profiles for each gene (Supplemental Material, Note 4). WT expression levels (blue), phyA mutant (red).


Functional ClassificationGene nameProtein Accession #
Transcription Contains similarity to gb|AJ000644 SPOPspeckle-type POZ protein AAD41432
Transcription homeobox protein HAT22 CAB38927
Transcription ATHB-12 AAC39462
Transcription putative DNA-binding protein CAB45914
Transcription H-protein promoter binding factor-1 AAC24592
Transcription putative RNA-binding protein AAD21720
Transcription R2R3-MYB transcription factor CAB09226
Transcription ethylene responsive element binding factor 5 BAA32422
Transcription putative DNA binding protein CAA16566
Transcription putative RING-H2 finger protein RHA2b AAD14516
Transcription myb-like protein CAB41106
Transcription zinc finger protein 2 AAD33770
Transcription RGA2 protein CAA72178
Transcription putative transcription factor AAC83596
Transcription homologous to GATA-binding transcription factors CAA74002
Transcription ARR2 protein BAA74527
Transcription ARGININE/SERINE-RICH SPLICING FACTOR RSP31 CAB71893
Transcription putative GATA-type zinc finger transcription factor AAD32831
Transcription putative bZIP transcription factor AAD12004
Transcription RAV1 BAA34250
Transcription scarecrow-like 21 AAF21044
Transcription homeobox protein AAA56906
Transcription zinc-finger-like protein CAB39777
Transcription putative C2H2-type zinc finger protein AAD20087
Transcription RING-H2 zinc finger protein ATL4 AAD33582
Transcription homeobox protein AAA56901
Transcription zinc finger protein isolog AAB63618
Transcription putative MADS-box protein ANR1 AAD25638
Photosynthesis/ChloroplastNADPH thioredoxin reductase CAA80655
Photosynthesis/Chloroplast responsible for fatty acid elongation from C28 to C30CAA63618
Photosynthesis/Chloroplast protein disulfide-isomerase- like protein CAB41088
Photosynthesis/Chloroplast NADPH:protochlorophyllide oxidoreductase A AAC49043
Cellular Metabolismcytochrome P450CAA66458
Cellular Metabolism Similar to gb|AF099053 phosphatidylserine synthase-2AAD39639
Cellular Metabolism putative lipase AAB63082
Cellular Metabolism putative symbiosis-related protein AAD29776
Cellular Metabolism Translation factor EF-1 alpha - like protein CAA16563
Cellular Metabolismaldehyde dehydrogenase (NAD+)AAC98035
Cellular Metabolism putative phosphatidylserine decarboxylase CAB39662
Cellular Metabolism Phosphoglycerate dehydrogenase - like protein CAA17552
Cellular Metabolism putative aconitase CAB36543
Cellular Metabolism xanthine dehydrogenase-like protein CAB45450
Cellular Metabolismphosphoenolpyruvate carboxykinase (ATP)-like protein CAB38935
Cellular Metabolism carnitine racemase like protein CAB10223
Cellular Metabolism putative steroid dehydrogenase AAB80678
Cellular Metabolism 10-formyltetrahydrofolate synthetase AAD56290
Cellular Metabolism nodulin-like protein CAB45799
Cellular Metabolism pectinesterase-like protein CAB36796
Cellular Metabolismvegetative storage like proteinAAD10666
Cellular Metabolism putative transketolase precursor AAB82634
Cellular Metabolism anthranilate N-benzoyltransferase- like protein CAB69849
Cellular Metabolism glutamate decarboxylase AAA93132
Cellular Metabolism possible aldehyde decarbonylase BAA11024
Cellular Metabolism phosphoglycerate dehydrogenase BAA24440
Cellular Metabolism putative GDSL-motif lipase/hydrolase AAD25823
Cellular Metabolism putative nonspecific lipid-transfer protein AAC67365
Cellular Metabolism lipase AAA93262
Cellular Metabolism putative steroid sulfotransferase AAD20078
Cellular Metabolism putative aspartic protease AAD29758
Cellular Metabolism SEC14-like protein CAB43633
Cellular Metabolism cinnamyl-alcohol dehydrogenase CAD1 CAB43648
Cellular Metabolism aldehyde dehydrogenase like protein CAA18131
Cellular Metabolism putative phosphoribosylanthranilate transferase CAB39932
Cellular Metabolism putative RAD50 DNA repair protein AAD15407
Cellular Metabolism 3-hydroxy-3-methylglutaryl-CoA reductase AAA67317
Cellular Metabolismsimilar to glycosyl hydrolases family 9AAC28173
Cellular Metabolism Highly Similar to branched-chain amino acid aminotransferase AAC34333
Cellular Metabolism phosphoenolpyruvate carboxylase AAC24594
Cellular Metabolism glutamine-dependent asparagine synthetase CAB51206
Cellular Metabolism3-methylcrotonyl-CoA carboxylase precursor protein AAD25800
Cellular Metabolism homogentisate 1,2-dioxygenase AAD00360
Cellular Metabolism similar to 2,4-dihydroxyhept-2-ene- 1,7-dioic acid aldolases AAC35519
Cellular Metabolism C-8,7 sterol isomeraseAAD03489
Cellular Metabolism recA-like protein BAA08255
Cellular Metabolism uridine diphosphate glucose epimerase CAA90941
Cellular Metabolism alanine:glyoxylate aminotransferase 2 homolog AAD48837
Cellular Metabolism putative cytochrome P450 AAB87109
Cellular Metabolism putative dioxygenase AAC20719
Cellular Metabolism putative oxidoreductase CAB39626
Cellular Metabolism branched-chain alpha keto-acid dehydrogenase E1 alpha subunit AAC69851
Cellular Metabolism endo-1,4-beta-glucanase CAA67156
Cellular Metabolism Similar to sucrose synthaseAAC28175
Cellular Metabolism putative flavonol 3-O- glucosyltransferase AAC35240
Cellular Metabolism putative flavonol 3-O- glucosyltransferase AAC35239
Cellular Metabolism ribosomal protein S14 CAB40383
Cellular Metabolism copper amine oxidase like protein CAB45975
SignalingphyC photoreceptor CAA35223
Signaling protein kinase-like protein CAB41172
Signaling protein kinase BAA24694
Signaling putative phosphatidylinositol-4-phosphate 5- kinase AAC78530
Signaling putative MAP kinase AAC67338
Signaling14-3-3 proteinAAD46005
Transportersputative ABC transporter AAC34225
Transporters putative ABC transporter AAC28975
Transporters putative Na+/H+-exchanging protein CAA23036
Transporters histidine transport protein (PTR2-B) AAD20096
Transporters putative zinc transporter AAC24198
Transporters sugar transporter like protein CAB16808
Transporters ammonium transporter AAD54638
Transporters putative cadmium-transporting ATPase AAD12041
Growth/Development glycine rich protein thaliana]CAA78712
Growth/Development glycine rich protein CAA78711
Growth/Development putative polygalacturonase AAC02763
Growth/Development blue copper-binding protein, 15K (lamin)CAB41005
Growth/Development glucosyltransferase -like protein CAA17559
Growth/Development caltractin-like protein CAB16762
Growth/Development patatin-like protein CAB16788
Growth/Development male sterility 2-like protein CAA68191
Growth/Development fimbrin 2 AAB97847
Growth/DevelopmentStrong similarity to Arabidopsis myosin MYA1AAB80627
Growth/Development putative expansin AAC23634
Growth/Development putative proline-rich protein AAD29802
Growth/Development strong similarity to meri 5 AAC27142
Growth/Development Strong similarity to Musa pectate lyaseAAB80622
Growth/Development AnnAt4 AAF14581
Growth/Development contains similarity to expansins AAC72858
Growth/Development elongation factor-1 beta A1 CAA52751
Growth/Development xyloglucan endotransglycosylase- related protein AAB18368
Growth/Development patatin-like protein CAB16787
Growth/Development beta-6 tubulin AAA32884
Growth/Development ATPME2 precursor AAC50023
Growth/Development endoxyloglucan transferase BAA81669
Growth/Development oleosin CAA44225
Growth/Development extensin like protein CAA22151
Hormone-relatedputative N-acetyltransferase hookless1 AAB03774
Hormone-related ethylene responsive element binding factor 3 BAA32420
Hormone-related ethylene responsive element binding factor 1 BAA32418
Hormone-related GH3 like protein CAA19720
Hormone-related ABI2 protein phosphatase 2C CAA70163
Hormone-related putative auxin efflux carrier AGR AAC61781
Hormone-related IAA19 AAB84356
Hormone-related putative auxin-regulated protein AAD20125
Hormone-related putative auxin-regulated protein AAB82641
Hormone-related putative homolog of transport inhibitor response 1 AAD14447
Hormone-related IAA6 AAC49047
Hormone-related 1-aminocyclopropane 1-carboxylate synthase [ArabidopsisCAA78260
Hormone-related ILR1 AAB60293
Hormone-related IAA20 AAB84357
Hormone-related SAUR-AC-like protein (small auxin up RNA) CAB36843
Hormone-related gibberellin-regulated AAA74480
Hormone-related GA4 AAC37506
Hormone-related similar to gibberellin-regulated proteins AAC61287
Hormone-related auxin-induced protein (IAA20) AAC34236
Stress/DefenseAtPIP5K1 BAA33501
Stress/Defense catalase 3 AAC49807
Stress/Defense OPDA-reductase homolog AAD38925
Stress/Defense metallothionein-like protein AAB87107
Stress/Defense 12-oxophytodienoate reductase OPR1 thaliana]AAC78440
Stress/Defense glutathione transferase CAA72973
Stress/Defense glutathione S-transferase AAC20721
Stress/Defense putative glutathione S-transferase AAC95189
Stress/Defense putative cysteine proteinase inhibitor B (cystatin BAAD15406
Stress/Defense putative disease resistance response protein CAA23035
Stress/Defense peroxidase precursor AAB94661
Stress/Defense putative cysteine proteinase inhibitor B (cystatin B)AAB86448
Stress/Defense LEA76 homologue type2 CAA63006
Stress/Defense Barley Mlo protein isolog AAB65495
Stress/Defense putative glutathione S-transferase AAC78521
Stress/Defense trehalase precusor isolog AAB63620
Stress/Defense peroxidase ATP8a CAA67361
Stress/Defense putative nematode-resistance protein AAB95285
Stress/Defense peroxidase CAA66963
Stress/Defense respiratory burst oxidase protein B AAC39476
Stress/Defense similar to late embryogenesis abundant proteins AAC17827
Stress/Defense peroxidase CAA07352
Stress/Defense selenium-binding protein like CAB46000
Stress/Defense late embryogenesis abundant M10 protein AAC78544
Stress/Defense Contains similarity to DnaJ gene AAC27138
Stress/Defense thaumatin-like protein CAA18495
Stress/Defense cysteine proteinase inhibitor like protein CAB10426
Stress/Defense pEARLI 1-like protein CAB41722
Hypothetical/Unknownunknown proteinCAB42594
Hypothetical/Unknownunknown proteinAAC02771
Hypothetical/Unknownunknown proteinAAC72128
Hypothetical/Unknownunknown proteinAAD22649
Hypothetical/Unknownunknown proteinAAB86457
Hypothetical/Unknownunknown proteinAAF24813
Hypothetical/Unknownunknown proteinAAC67322
Hypothetical/Unknownunknown proteinCAB41089
Hypothetical/Unknownunknown proteinAAC23645
Hypothetical/Unknownunknown proteinAAF26470
Hypothetical/Unknownunknown proteinCAA19822
Hypothetical/Unknownunknown proteinAAC13630
Hypothetical/Unknownunknown proteinAAD32864
Hypothetical/Unknownunknown proteinCAB43700
Hypothetical/Unknownunknown proteinCAA16582
Hypothetical/Unknownunknown proteinAAC00619
Hypothetical/Unknownunknown proteinAAD18096
Hypothetical/Unknownunknown proteinAAC69935
Hypothetical/Unknownunknown proteinCAB39606
Hypothetical/Unknownunknown proteinAAF16756
Hypothetical/Unknownunknown proteinCAA17570
Hypothetical/Unknownunknown proteinCAB37490
Hypothetical/Unknownunknown proteinAAC19282
Hypothetical/Unknownunknown proteinAAC34356
Hypothetical/Unknownunknown proteinAAD24597
Hypothetical/Unknownunknown proteinAAD15439
Hypothetical/Unknownunknown proteinAAD11994
Hypothetical/Unknownunknown proteinCAA19764
Hypothetical/Unknownunknown proteinCAA16754
Hypothetical/Unknownunknown proteinAAD10681
Hypothetical/Unknownunknown protein*
Hypothetical/Unknownunknown proteinAAD22328
Hypothetical/Unknownunknown proteinAAB61491
Hypothetical/Unknownunknown proteinAAB87114
Hypothetical/Unknownunknown proteinAAB61480
Hypothetical/Unknownunknown protein*
Hypothetical/Unknownunknown proteinAAD25759
Hypothetical/Unknownunknown proteinAAD22657
Hypothetical/Unknownunknown proteinCAB16754
Hypothetical/Unknownunknown proteinAAC78702
Hypothetical/Unknownunknown proteinAAC00613
Hypothetical/Unknownunknown proteinAAD39663
Hypothetical/Unknownunknown proteinCAB42910
Hypothetical/Unknownunknown proteinAAD15574
Hypothetical/Unknownunknown proteinCAA22573
Hypothetical/Unknownunknown proteinCAA17569
Hypothetical/Unknownunknown proteinAAC17091
Hypothetical/Unknownunknown proteinAAB70431
Hypothetical/Unknownunknown proteinAAD23666
Hypothetical/Unknownunknown proteinAAD15577
Hypothetical/Unknownunknown proteinAAC16087
Hypothetical/Unknownunknown proteinAAC63633
Hypothetical/Unknownunknown proteinCAB38920
Hypothetical/Unknownunknown proteinAAB84345
Hypothetical/Unknownunknown proteinAAC98053
Hypothetical/Unknownunknown proteinAAB82630
Hypothetical/Unknownunknown proteinAAD12008
Hypothetical/Unknownunknown proteinAAB64323
Hypothetical/Unknownunknown proteinAAC13620
Hypothetical/Unknownunknown proteinCAA20042
Hypothetical/Unknownunknown proteinAAD39636
Hypothetical/Unknownunknown proteinCAA23021
Hypothetical/Unknownunknown proteinCAA19705
Hypothetical/Unknownunknown proteinAAF18671
Hypothetical/Unknownunknown proteinCAA18854
Hypothetical/Unknownunknown proteinCAB45783
Hypothetical/Unknownunknown proteinAAD43605
Hypothetical/Unknownunknown proteinAAC97991
Hypothetical/Unknownunknown proteinAAC61819
Hypothetical/Unknownunknown proteinCAA10955
Hypothetical/Unknownunknown proteinAAC62120
Hypothetical/Unknownunknown proteinAAC17615
Hypothetical/Unknownunknown proteinCAB10442
Hypothetical/Unknownunknown proteinAAC28533
Hypothetical/Unknownunknown proteinAAD14534
Hypothetical/Unknownunknown proteinAAD21475
Hypothetical/Unknownunknown proteinCAA18168
Hypothetical/Unknownunknown proteinCAB16798
Hypothetical/Unknownunknown proteinCAB41159
Hypothetical/Unknownunknown proteinAAB67620
Hypothetical/Unknownunknown proteinAAF22894
Hypothetical/Unknownunknown proteinAAD22996
Hypothetical/Unknownunknown proteinCAA21198
Hypothetical/Unknownunknown proteinAAB61493