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 Carubv10012703m
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family FAR1
Protein Properties Length: 411aa    MW: 46174.7 Da    PI: 6.433
Description FAR1 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10012703mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1FAR191.31.3e-2866153291
             FAR1   2 fYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkktekerrtraetrtgCkaklkvkkekdgkwevtkleleHnHelap 91 
                      fY+eYAk++GF++++++s++sk+++e+++++f Cs++g + e+++   +++r++++++t+Cka+++vk++ dgkw ++++ ++HnHel p
  Carubv10012703m  66 FYQEYAKSMGFTTSIKNSRRSKKTKEFIDAKFACSRYGVTPESESG--SSSRRSSVKKTDCKASMHVKRRADGKWIIHEFIKDHNHELLP 153
                      9**************************************9999888..8999999********************************975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF031012.9E-2666153IPR004330FAR1 DNA binding domain
Sequence ? help Back to Top
Protein Sequence    Length: 411 aa     Download sequence    Send to blast
MDLQENQVSD AGDECMVDIM VESNSNRDVG IVDDLKAGGD LGFSGVLDLE PRNGIDFESN  60
DAAYLFYQEY AKSMGFTTSI KNSRRSKKTK EFIDAKFACS RYGVTPESES GSSSRRSSVK  120
KTDCKASMHV KRRADGKWII HEFIKDHNHE LLPALAYHFR IQRNVKLAEK NNIDILHAVS  180
ERTRKMYVEM SRQSGGYKNI GPLLQNDGNN HVDKDAKSGV MAGEGADQIQ TRVQRYNDLC  240
SRAIELSEEG CVSEENYSIV LRTLVETLKN CVDLNNARNN IAESSCQLNN GAREEENQLM  300
AVKATKKKTV IRKRKGQQEA DQMLESQQSL QPMETMSSEG MSMNGYYGPQ QNVQGLLNLM  360
EPPHEGYYVN QRTIQGLGQM DFRPPPNFTY NLQEEHLRSA QLPGSSSRQL *
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
PlantRegMapCarubv10012703m
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
GenBankAF1595870.0AF159587.1 Arabidopsis thaliana far-red impaired response protein (FAR1) mRNA, complete cds.
GenBankAY0789410.0AY078941.1 Arabidopsis thaliana AT4g15090/dl3590w mRNA, complete sequence.
GenBankCP0026870.0CP002687.1 Arabidopsis thaliana chromosome 4 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_023635512.10.0protein FAR-RED IMPAIRED RESPONSE 1
SwissprotQ9SWG31e-120FAR1_ARATH; Protein FAR-RED IMPAIRED RESPONSE 1
TrEMBLR0GI891e-157R0GI89_9BRAS; Uncharacterized protein (Fragment)
STRINGXP_006279097.11e-158(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM11826253
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G15090.11e-121FAR1 family protein
Publications ? help Back to Top
  1. 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]
  2. 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]
  3. 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]
  4. 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]
  5. 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]
  6. 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]
  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]