PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_015880907.1
Organism
Ziziphus jujuba
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rhamnaceae; Paliureae; Ziziphus
Family FAR1
Protein Properties Length: 846aa    MW: 97432.8 Da    PI: 6.8564
Description FAR1 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_015880907.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1FAR185.11.1e-2689191191
            FAR1   1 kfYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkk............tekerrtraetrtgCkaklkvkkekdgkwevtklel 83 
                     +fY+eYA+++GF++ +++s++sk+++e+++++f Cs++g+++e +k+             e++  +r+ ++t+Cka+++vk++ dgkw+++++++
  XP_015880907.1  89 SFYQEYARSMGFNTAIQNSRRSKTSREFIDAKFACSRYGTKREYDKSfnrprsrqnkqdPENATGRRSCSKTDCKASMHVKRRPDGKWVIHNFVK 183
                     5*******************************************9999999988766554555559999************************** PP

            FAR1  84 eHnHelap 91 
                     eHnHel p
  XP_015880907.1 184 EHNHELLP 191
                     *****975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF031011.6E-2489191IPR004330FAR1 DNA binding domain
PfamPF105513.7E-32289381IPR018289MULE transposase domain
PROSITE profilePS509669.025569605IPR007527Zinc finger, SWIM-type
PfamPF044341.8E-4579602IPR007527Zinc finger, SWIM-type
SMARTSM005751.0E-7580607IPR006564Zinc finger, PMZ-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009585Biological Processred, far-red light phototransduction
GO:0010218Biological Processresponse to far red light
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: 846 aa     Download sequence    Send to blast
MDIDLRLPSG EHDKEGEEPT GIDNMLDNEE KLHNGDIETG NMVDIVDDVR AEDGGDLNSP  60
TTDIVVFKED TNLEPLSGME FESHGEAYSF YQEYARSMGF NTAIQNSRRS KTSREFIDAK  120
FACSRYGTKR EYDKSFNRPR SRQNKQDPEN ATGRRSCSKT DCKASMHVKR RPDGKWVIHN  180
FVKEHNHELL PAQAVSEQTR KMYAAMARQF AEYKNVVGLK NDLKSPFDKG RNLALEAGDL  240
KNLLDFCTQM QNMNSDFFYA IDLGEDQRLK NVFWVDAKSR HDYTNFNDVV SFDTTYIRNK  300
YKMPLALFVG VNQHYQFMLL GCALVSDESA TTFSWLMQTW LKAMGGQAPK VIITDHDKAI  360
KSVIPDIFPS AHHYFCLWHM MGKVTENLGH VIKRHENFIA KFEKCIHRSW TIEEFEKRWW  420
KILEKFELKE DEWMQLLYED RKQWVPTFMR DAFLAGMSTV QRSESVNCFF DKYVHKKTTV  480
QEFLKQYEAI LQDRYEEEAK ADSDTWNKQP TLKSPSPLEK SVSGVYTHAV FKKFQVEVLG  540
AVACHPKRER QDETGITFRV QDFERNLDFI VLWNEMKSEV SCLCRLFEYK GYLCRHAMIV  600
LQICGLSAIP SQYILKRWTK DAKNRHLTGE ESDHLQSRVQ RYNDLCQRAI KLTEEGSISQ  660
ESYSIACRAL DEAFSNCVSV NNSSKSLVEA STSTPHGLLC IEEDNQNKSM GKQNKKKNPT  720
KKRKVSFEPD VMAVGAQDSL QQMDKLNSRT VTLDGYYGAQ QSVQGMVQLN LMAPTRDNYY  780
GNQQTIQGLG QLNSIAPSHD GYYGTQQSMH GLGQMDFFRA PGFAYNIRDD PNVRTAALHD  840
DTSRHG
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
PlantRegMapXP_015880907.1
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_015880907.10.0protein FAR-RED ELONGATED HYPOCOTYL 3
SwissprotQ9LIE50.0FHY3_ARATH; Protein FAR-RED ELONGATED HYPOCOTYL 3
TrEMBLA0A251Q2970.0A0A251Q297_PRUPE; Uncharacterized protein
STRINGXP_008229656.10.0(Prunus mume)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF4030530
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]