PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Potri.006G020700.1
Common NamePOPTR_0006s02150g
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
Family FAR1
Protein Properties Length: 847aa    MW: 96918 Da    PI: 7.4086
Description FAR1 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.006G020700.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1FAR185.96e-2787189191
                FAR1   1 kfYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkk............tekerrtraetrtgCkaklkvkkekdgkwevt 79 
                         +fY+eYA+++GF++ +++s++sk+++e+++++f Cs++g+++e +k+             e+   +r+ ++t+Cka+++vk+++dgkw+++
  Potri.006G020700.1  87 SFYQEYARSMGFNTAIQNSRRSKTSREFIDAKFACSRYGTKREYDKSfnrprsrqtkqdPENGTGRRSCSKTDCKASMHVKRRSDGKWVIH 177
                         5*******************************************999999998776555444555999*********************** PP

                FAR1  80 kleleHnHelap 91 
                         ++++eHnHel p
  Potri.006G020700.1 178 SFVKEHNHELLP 189
                         *********975 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF031018.8E-2587189IPR004330FAR1 DNA binding domain
PfamPF105511.0E-31287379IPR018289MULE transposase domain
PROSITE profilePS509669.396567603IPR007527Zinc finger, SWIM-type
SMARTSM005751.4E-7578605IPR006564Zinc finger, PMZ-type
PfamPF044347.2E-5579602IPR007527Zinc finger, SWIM-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009585Biological Processred, far-red light phototransduction
GO:0010018Biological Processfar-red light signaling pathway
GO:0042753Biological Processpositive regulation of circadian rhythm
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 847 aa     Download sequence    Send to blast
MDIDLRLPSG DHDKEGEEPN DVNNMLSEVK LHNGDVEIGN VVDVAEQVLS IEGGDVNSPT  60
TSMGFKEDIK LEPLSGMEFE SHGAAYSFYQ EYARSMGFNT AIQNSRRSKT SREFIDAKFA  120
CSRYGTKREY DKSFNRPRSR QTKQDPENGT GRRSCSKTDC KASMHVKRRS DGKWVIHSFV  180
KEHNHELLPA QAVSEQTRKM YAAMARQFAE YKNVVGLKND PKNPFDKGRN LGLEAGETKI  240
LLDFFTQMQN MNSNFFYAVD LGEDQRLKNL FWADAKSRHD YSNFSDVVNF DTTYVRNKYK  300
MPLALFVGVN QHYQFMLLGC TLLSDESAAT YSWLMQTWLR AMGGQAPKVI ITDQDKAMKQ  360
VISDVFPNAH HCFCLWNILG KVSENLGNVI KQNGNFMAKF DKCIFRSWTE NEFGKRWWKI  420
LDRFELRENE WMQSLYEDRE QWVPIYMRGA FLAGMSTVLR SESINSYFDK YVHKKTTVQE  480
FVRQYGSILQ DRYEEEAKAD SDTWNKQPTL KSPSPLEKSV SGMYTHAVFK KFQVEVLGVV  540
ACHPKMESQD ETSISFRVQD LEKEQDFTVL WNQTGLEVSC ICRLYEYKGY LCRHALVVLQ  600
MCQQSAIPSQ YILKRWTKDA KSRHLLGEEC EQVQSRVQRY NDLCQRALKL SEEASLSQES  660
YNMAFRALEE AFGNCISMNN SNKNLVEAGT SATHGLLCIE DDNQNRSVTK TNKKKNQTKK  720
RKVNSEQVIT TVGPQDSLQQ MDKLSSRAVA LEGYYGTQQG VPGMVQLNLM APTRDNYYSN  780
QQTIQGLGQL NSIAPSHDGY YGTQQSMHGL GQMDFFRTPA GFSYGIRQDD PNVRTAQLHD  840
DGSRHA*
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that recognizes and binds to the DNA consensus sequence 5'-CACGCGC-3'. Activates the expression of FHY1 and FHL involved in light responses. When associated with PHYA, protects it from being recognized and degraded by the COP1/SPA complex. Positive regulator of chlorophyll biosynthesis via the activation of HEMB1 gene expression. {ECO:0000269|PubMed:11889039, ECO:0000269|PubMed:12753585, ECO:0000269|PubMed:17012604, ECO:0000269|PubMed:18033885, ECO:0000269|PubMed:18715961, ECO:0000269|PubMed:22634759}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00078ChIP-seqTransfer from AT3G22170Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPotri.006G020700.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated after exposure to far-red light. Subject to a negative feedback regulation by PHYA signaling. Up-regulated by white light. {ECO:0000269|PubMed:11889039, ECO:0000269|PubMed:18033885, ECO:0000269|PubMed:22634759}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024459456.10.0protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X1
RefseqXP_024459457.10.0protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X1
RefseqXP_024459458.10.0protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X1
RefseqXP_024459459.10.0protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X1
RefseqXP_024459460.10.0protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X1
SwissprotQ9LIE50.0FHY3_ARATH; Protein FAR-RED ELONGATED HYPOCOTYL 3
TrEMBLB9HD600.0B9HD60_POPTR; Uncharacterized protein
STRINGPOPTR_0006s02150.10.0(Populus trichocarpa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF4030530
Representative plantOGRP1057657
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G22170.20.0far-red elongated hypocotyls 3
Publications ? help Back to Top
  1. Chang N,Gao Y,Zhao L,Liu X,Gao H
    Arabidopsis FHY3/CPD45 regulates far-red light signaling and chloroplast division in parallel.
    Sci Rep, 2015. 5: p. 9612
    [PMID:25872642]
  2. Wang C, et al.
    SCAB3 Is Required for Reorganization of Actin Filaments during Light Quality Changes.
    J Genet Genomics, 2015. 42(4): p. 161-8
    [PMID:25953354]
  3. Wang W, et al.
    A pair of light signaling factors FHY3 and FAR1 regulates plant immunity by modulating chlorophyll biosynthesis.
    J Integr Plant Biol, 2016. 58(1): p. 91-103
    [PMID:25989254]
  4. Ma L, et al.
    Arabidopsis FHY3 and FAR1 Regulate Light-Induced myo-Inositol Biosynthesis and Oxidative Stress Responses by Transcriptional Activation of MIPS1.
    Mol Plant, 2016. 9(4): p. 541-57
    [PMID:26714049]
  5. Siddiqui H,Khan S,Rhodes BM,Devlin PF
    FHY3 and FAR1 Act Downstream of Light Stable Phytochromes.
    Front Plant Sci, 2016. 7: p. 175
    [PMID:26941752]
  6. Li D, et al.
    FAR-RED ELONGATED HYPOCOTYL3 activates SEPALLATA2 but inhibits CLAVATA3 to regulate meristem determinacy and maintenance in Arabidopsis.
    Proc. Natl. Acad. Sci. U.S.A., 2016. 113(33): p. 9375-80
    [PMID:27469166]
  7. Liu L,Li B,Liu X
    FAR-RED ELONGATED HYPOCOTYL3 promotes floral meristem determinacy in Arabidopsis.
    Plant Signal Behav, 2016. 11(10): p. e1238545
    [PMID:27660915]
  8. Ma L,Xue N,Fu X,Zhang H,Li G
    Arabidopsis thaliana FAR-RED ELONGATED HYPOCOTYLS3 (FHY3) and FAR-RED-IMPAIRED RESPONSE1 (FAR1) modulate starch synthesis in response to light and sugar.
    New Phytol., 2017. 213(4): p. 1682-1696
    [PMID:27859295]
  9. Liu Y, et al.
    Light and Ethylene Coordinately Regulate the Phosphate Starvation Response through Transcriptional Regulation of PHOSPHATE STARVATION RESPONSE1.
    Plant Cell, 2017. 29(9): p. 2269-2284
    [PMID:28842534]
  10. Joly-Lopez Z, et al.
    Abiotic Stress Phenotypes Are Associated with Conserved Genes Derived from Transposable Elements.
    Front Plant Sci, 2017. 8: p. 2027
    [PMID:29250089]