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.016G018300.4
Common NamePOPTR_0016s01980g
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: 844aa    MW: 96537.5 Da    PI: 7.4571
Description FAR1 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.016G018300.4genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1FAR185.11.1e-2685186190
                FAR1   1 kfYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkk............tekerrtraetrtgCkaklkvkkekdgkwevt 79 
                         +fY+eYA+++GF++ +++s++sk+++e+++++f Cs++g+++e +k+             e+  ++r+ ++t+Cka+++vk++ dgkw+++
  Potri.016G018300.4  85 SFYQEYARSMGFNTAIQNSRRSKTSREFIDAKFACSRYGTKREYDKSfnrprsrqtkqdPENGTSRRSCSKTDCKASMHVKRRPDGKWVIH 175
                         5*******************************************9999999998877766666679999********************** PP

                FAR1  80 kleleHnHela 90 
                         ++++eHnH l 
  Potri.016G018300.4 176 SFVKEHNHGLL 186
                         ********997 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF031011.4E-2485187IPR004330FAR1 DNA binding domain
PfamPF105513.7E-29285376IPR018289MULE transposase domain
PROSITE profilePS509669.273565601IPR007527Zinc finger, SWIM-type
SMARTSM005751.7E-7576603IPR006564Zinc finger, PMZ-type
PfamPF044341.8E-4577600IPR007527Zinc 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: 844 aa     Download sequence    Send to blast
MDIDLRLPSG DHDKEGEEPN VNNMLSEVKL HNGDAETGNV VDVAEEILSI EGGDVNSPTP  60
TTFKEDTNLE PLSGMEFESH GAAYSFYQEY ARSMGFNTAI QNSRRSKTSR EFIDAKFACS  120
RYGTKREYDK SFNRPRSRQT KQDPENGTSR RSCSKTDCKA SMHVKRRPDG KWVIHSFVKE  180
HNHGLLPAQA VSEQTRRMYA AMAQQFAEYK NVAGLKNDPK NSFDKGRNLG LEAGETKILL  240
DFFTKMQNMN SNFFYAVDLG EDQRLKNLFW ADAKSRHDYG NFSDVVSFDT TYVRNKYKMP  300
LALFVGVNQH YQFMLLGCAL ISDESAATYS WLMQTWLRAM GGQTPKVIIT DQDKAMKLVI  360
SEVFPSAHHC FFLWNILGKV SENLGSVIKQ NENFMAKFDK CIFRSWTENE FGKRWWKILD  420
RFELRENEWM QSLYEDREQW VPIYMRGAFL AGMSTVLRSE STNSHFDKHV HKKTTVQEFV  480
RQYEPILQDR YEEEAKADSD TWNKQPSLKS PSPLEKSVSG VYTHAVFKKF QVEVLGVVAC  540
HPKMESQDEI SVSFRVQDLE KHQDFTVLWN QMRLEVSCIC RLYEYKGFLC RHALVVLQMC  600
QQSAIPSQYI LKRWTKDAKS KHLLGEESEK VQSRVQRYND LCQRALKLSE EASLSQESYN  660
IAFRALGEVF GNCISMNNSN KSLVEAGTST THGLLCIEDD NQNRSMTKTN KKKNQAKKRK  720
VNSEQEITTD GPQDSLQQMD KLSSRAVALE GYYGTQQGVP GMVQLNLMAP TRDNYYSNQQ  780
TIQGLGQLNS IAPSHDGYYG TQQSMNGLGQ MDFFRTPTGF AYSIRDDPNV RTAQLHDDGS  840
RHA*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pth.11320.0bud| leaf
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPotri.016G018300.4
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
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEF1481050.0EF148105.1 Populus trichocarpa clone WS0127_J20 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002323176.20.0protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X2
RefseqXP_024443449.10.0protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X2
RefseqXP_024443450.10.0protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X2
SwissprotQ9LIE50.0FHY3_ARATH; Protein FAR-RED ELONGATED HYPOCOTYL 3
TrEMBLA0A2K1X9A30.0A0A2K1X9A3_POPTR; Uncharacterized protein
STRINGPOPTR_0016s01980.10.0(Populus trichocarpa)
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]