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 Solyc02g068550.1.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon
Family FAR1
Protein Properties Length: 795aa    MW: 90467.6 Da    PI: 8.1867
Description FAR1 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc02g068550.1.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1FAR182.57.2e-2696202291
                FAR1   2 fYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkk.................tekerrtraetrtgCkaklkvkkekdgk 75 
                          Y+eYAk++GFs  +++s++s+ +g++++++fvCs++g+++e +++                 ++k r +r+ ++t+Cka+l+vk+++dg+
  Solyc02g068550.1.1  96 HYKEYAKSIGFSSIIKASRRSRISGKFIDAKFVCSRYGSKREPSTSgaepvpstdaagsnpvkRKKGRINRSWSKTDCKACLHVKRRSDGR 186
                         6****************************************999999*************998889999********************** PP

                FAR1  76 wevtkleleHnHelap 91 
                         w+++++++eHnHe++p
  Solyc02g068550.1.1 187 WVIHTFVKEHNHEIFP 202
                         *************975 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF031011.1E-2396202IPR004330FAR1 DNA binding domain
PfamPF105514.4E-27319412IPR018289MULE transposase domain
PROSITE profilePS5096610.361599635IPR007527Zinc finger, SWIM-type
PfamPF044344.7E-8600634IPR007527Zinc finger, SWIM-type
SMARTSM005751.8E-6610637IPR006564Zinc finger, PMZ-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: 795 aa     Download sequence    Send to blast
MVMDLVPPSG DHHEKEDCGR HTCVRIESAN GELRGTVTAS KSVCLGIENA GTSWNERTSN  60
GANVLPNTDS LAVNCYRNLE PHDGMEFDSK ENAFSHYKEY AKSIGFSSII KASRRSRISG  120
KFIDAKFVCS RYGSKREPST SGAEPVPSTD AAGSNPVKRK KGRINRSWSK TDCKACLHVK  180
RRSDGRWVIH TFVKEHNHEI FPDWTSYPPG HRNIDLGKND ADAFHAIRGR TKKTYASTSR  240
HSGFVKKVEK QKNGGTNSSP QSLALDEGDA QVILEYFLCM QDENPNFFYA LDLNQEKRLR  300
NVFWIDAKCR LDCGNFSDVV LFDTTYITDE YKLQFVPFIG VNHHFQSILL GCGLIADESK  360
STFIWLMRAW LRALGGQVPK VILTDQGKIL EEVIAEVLPD SRHCFCLWHV LSKIQEKLGH  420
VIRQHESFLS KFNKCILRSA TNELFEKRWW KVVARFDLGN DLWIKSLYED RLRWVPTYMN  480
KIFLAGMSTM QRAESISALL DKCILCKTTL KEFLDQYKKL LQEKCQGEAN ADFETRHKQP  540
GLKSPSPFEK QMSTLYTHTI FKKFQVEVLG VVACHPKKEN DDGENGTYRV QDFEVNQEFI  600
VVWNERTSDT SCSCHLFEYN GFLCRHVMIV LQMAGVHNIP SKYVLRRWTK GAKSREKTRQ  660
VALVDSRVQR YNDLCQRAFE LGDEGSLSQE SYNILSSVLE NFLRTCETVN DANLNESEPC  720
SLPNQGLKDL EVFTDRNNPS KSNGKNIARK EKEGQIDFGE STVDYPFGSH SAIQPMATYI  780
PEFHFLMATT AAPK*
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. Positive regulator of chlorophyll biosynthesis via the activation of HEMB1 gene expression. {ECO:0000269|PubMed:11889039, ECO:0000269|PubMed:12753585, ECO:0000269|PubMed:18033885, ECO:0000269|PubMed:22634759}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc02g068550.1.1
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. {ECO:0000269|PubMed:18033885}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2154550.0Solanum lycopersicum chromosome 2 clone C02SLe0042O06, complete sequence
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010317042.10.0protein FAR-RED IMPAIRED RESPONSE 1
RefseqXP_010317043.10.0protein FAR-RED IMPAIRED RESPONSE 1
RefseqXP_025885074.10.0protein FAR-RED IMPAIRED RESPONSE 1
SwissprotQ9SWG30.0FAR1_ARATH; Protein FAR-RED IMPAIRED RESPONSE 1
TrEMBLA0A3Q7F0W40.0A0A3Q7F0W4_SOLLC; Uncharacterized protein
STRINGSolyc02g068550.1.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA49621103
Representative plantOGRP3012351
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G15090.10.0FAR1 family protein
Publications ? help Back to Top
  1. Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD
    Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments.
    Theor. Appl. Genet., 2005. 112(1): p. 72-84
    [PMID:16208505]
  2. Domergue F, et al.
    Three Arabidopsis fatty acyl-coenzyme A reductases, FAR1, FAR4, and FAR5, generate primary fatty alcohols associated with suberin deposition.
    Plant Physiol., 2010. 153(4): p. 1539-54
    [PMID:20571114]
  3. Heyndrickx KS,Vandepoele K
    Systematic identification of functional plant modules through the integration of complementary data sources.
    Plant Physiol., 2012. 159(3): p. 884-901
    [PMID:22589469]
  4. 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]
  5. 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]
  6. 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]
  7. 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]
  8. 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]
  9. 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]
  10. 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]
  11. 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]