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_012571074.1
Organism
Cicer arietinum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Cicereae; Cicer
Family FAR1
Protein Properties Length: 878aa    MW: 100445 Da    PI: 7.614
Description FAR1 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_012571074.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1FAR1851.2e-26114216191
            FAR1   1 kfYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkk............tekerrtraetrtgCkaklkvkkekdgkwevtklel 83 
                     +fY+eYA+++GF++ +++s++sk+++e+++++f Cs++g+++e +k+            +e++  +r+ ++t+Cka+++vk++ dgkw+++++++
  XP_012571074.1 114 SFYQEYARSMGFNTAIQNSRRSKTSREFIDAKFACSRYGTKREYDKSfnrprarqnkqeSENSTGRRSCSKTDCKASMHVKRRPDGKWVIHSFVK 208
                     5*******************************************9999****99876554555558999************************** PP

            FAR1  84 eHnHelap 91 
                     eHnH+l p
  XP_012571074.1 209 EHNHDLLP 216
                     *****975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF031011.2E-24114216IPR004330FAR1 DNA binding domain
PfamPF105511.9E-29313405IPR018289MULE transposase domain
PROSITE profilePS509669.631593629IPR007527Zinc finger, SWIM-type
PfamPF044346.2E-7594627IPR007527Zinc finger, SWIM-type
SMARTSM005751.6E-8604631IPR006564Zinc 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: 878 aa     Download sequence    Send to blast
MLPFYLYDIN HRKMRIPLES SKQAVLIMDI DLRLPSGEHD KEEEETTTID NMLEGEEKLH  60
NGDGRNMIDT GIEVHALNGG DLNSPTVDMV MFKEDSNLEP LSGMEFESHG EAYSFYQEYA  120
RSMGFNTAIQ NSRRSKTSRE FIDAKFACSR YGTKREYDKS FNRPRARQNK QESENSTGRR  180
SCSKTDCKAS MHVKRRPDGK WVIHSFVKEH NHDLLPAQAV SEQTRRMYAV MARQFAEYKT  240
VVGIKNEKNP FDKNRNLGLE FGEAKHMLDF FIQMQNMNSN FFYAVDLGED QRLKNLLWID  300
AKSRHDYINF CDVVSFDTTY VRNKYKMPLA LFVGVNQHYQ FILLGCALIS DESATTYSWL  360
LRTWLKGVGG QVPKVIITDH DKTLKSVISD IFPSACHCVC LWHILGKVSE NLAPVIKKHV  420
NFMAKFEKCI FRSLTSDDFD NRWEKILDRF ELRQDECMRS LYEDRKLWAP TFMKDVFLGG  480
MSTPQRSESV NSFFDKYVHR KTYVPDFVKQ YETILQDRYE EEAKADSDTW NKVATLKTPS  540
PLEKSVAGTC THAVFKKIQA EIIGAVACHP KADRQDETIV VHRVHDMETD KDFFVVVNEV  600
KSECSCICRL FEYKGYLCRH ALVVLQYSGH SVFPPQYILK RWTKDAKVRS VTGEESEHML  660
ARVQRYNDLC HRSLKLSEEG SLSQESYSIA FHALNDAHKS CVSVNNSSKS PTEAGTSGAH  720
VQLSAEEDTQ SRNMGKSNKK KNPTKKKKVN SEAEVMTVGA LDNLQQMEKF STRAAVTLEG  780
YYGTQQSVQG MLNLMGPTRD DYYGNQQTLQ GLGPISSIPT SHDSYYGAHQ SMPGLAQLDF  840
LRTGFTYGIR VSMQDDPNVR AAQLHEDPSR HALGKRGV
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_012571074.1
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankCT0301920.0CT030192.6 M.truncatula DNA sequence from clone MTH2-16D16 on chromosome 3, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012571074.10.0protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X1
RefseqXP_027190192.10.0protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X1
SwissprotQ9LIE50.0FHY3_ARATH; Protein FAR-RED ELONGATED HYPOCOTYL 3
TrEMBLA0A1S3E6T00.0A0A1S3E6T0_CICAR; protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X1
STRINGXP_004499738.10.0(Cicer arietinum)
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]