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 Glyma.02G239600.4.p
Common NameGLYMA_02G239600, LOC100780393
Organism
Glycine max
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja
Family ARF
Protein Properties Length: 768aa    MW: 85769.4 Da    PI: 6.3622
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.02G239600.4.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.82e-2348149199
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                          f+k+lt sd++++g +++p++ ae+        +++++  ++l+ +d++  +W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F 
  Glyma.02G239600.4.p  48 FCKTLTASDTSTHGGFSVPRRAAEKVfppldfsQQPPA--QELIARDLHDVEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI 135
                          99*****************************8544444..48************************************************ PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                            ++++ +l+++++r+
  Glyma.02G239600.4.p 136 --WNEKNQLLLGIRRA 149
                          ..8899999****997 PP
2Auxin_resp1218.9e-40174257183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                          aahaa+t+s F+v+YnPras+seFv++++k+ ka++ ++vsvGmRf+m fete+ss rr++Gt++g+sdldpvrWpnS+Wrs+k
  Glyma.02G239600.4.p 174 AAHAAATNSCFTVFYNPRASPSEFVIPLSKYIKAVYhTRVSVGMRFRMLFETEESSVRRYMGTITGISDLDPVRWPNSHWRSVK 257
                          79*********************************9789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.35E-4932177IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.2E-4141163IPR015300DNA-binding pseudobarrel domain
CDDcd100172.15E-2147148No hitNo description
SMARTSM010193.4E-2448150IPR003340B3 DNA binding domain
PfamPF023629.8E-2248149IPR003340B3 DNA binding domain
PROSITE profilePS5086312.37948150IPR003340B3 DNA binding domain
PfamPF065076.2E-35174257IPR010525Auxin response factor
PfamPF023097.3E-8637725IPR033389AUX/IAA domain
SuperFamilySSF542777.85E-7639715No hitNo description
PROSITE profilePS5174524.155641725IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009734Biological Processauxin-activated signaling pathway
GO:0009908Biological Processflower development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 768 aa     Download sequence    Send to blast
MLQCMWADVE TDEVYAQMTL QPLTPQEQKD TFLPMELGVP SKQPSNYFCK TLTASDTSTH  60
GGFSVPRRAA EKVFPPLDFS QQPPAQELIA RDLHDVEWKF RHIFRGQPKR HLLTTGWSVF  120
VSAKRLVAGD SVLFIWNEKN QLLLGIRRAN RPQTVMPSSV LSSDSMHIGL LAAAAHAAAT  180
NSCFTVFYNP RASPSEFVIP LSKYIKAVYH TRVSVGMRFR MLFETEESSV RRYMGTITGI  240
SDLDPVRWPN SHWRSVKVGW DESTAGERQP RVSLWEIEPL TTFPMYPSLF PLRLKRPWHP  300
GTSSFHDGRD EATNGLMWLR GGPGDQALNS LNFQGSGLLP WMQQRMDPTL LANDHNQHYQ  360
AMFASGLQNL GSGDLMRQQI MNFQQPFNYL QQSGNPNPPL QLQQPQAIQQ SVSSNNILQP  420
QAQVMAENLS QHLLQKSHNN REDQTQQQQQ QRHTYQDTVL LQSDQLHQRQ HSGLPSPSYS  480
KPDFLDSSMK FPASVSPGQN ILGSLCPEGS GNLLNLSRSG QSMLTEQLPQ QSWAPKFTPL  540
QVNAFGNSMQ HVQYSGKDTA MVPPHCNSDT QNPILFGVNI DSSGLLLPTT VPRYTTASAD  600
SDASAMPLGE SGFQSPLYPC GQDSSELVQS AGQVDPQNQT RTFVKVYKSG SVGRSLDISR  660
FSSYHELREE LAQMFGIEGK LEDPLRSGWQ LVFVDRENDV LLLGDDPWES FVNNVWYIKI  720
LSPEDIHKMG EQALESLGPS PGQRLNSTGA DSHEIVSGLP SIGSLEY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1227278117388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gma.606880.0cotyledon| leaf| meristem| somatic embryo| stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in sepals at stages 11, 12 and 13 of flower development. Highly expressed in petals at stages 9-10, decreases at stage 11 and disappears after flower stage 12. In anthers, expressed at stage 11 in the tapetum, disappears early in stage 12 when the tapetum degrades and reappears throughout the anther late in stage 12 to persist at least until stage 13. In stamen filaments, expressed at stages 12 to 13, especially near the apical end of the filament. Expressed throughout the gynoecium at early stages up to stage 12, especially strongly in ovules. Expression in gynoecium decreases late in stage 12, but persists through stage 13, especially near the apical end including the style. Expressed in the mesocarp of the fruit and the carpel septum during fruit growth. {ECO:0000269|PubMed:16107481, ECO:0000269|PubMed:16829592}.
UniprotTISSUE SPECIFICITY: Expressed in the whole plant. {ECO:0000269|PubMed:10476078}.
Functional Description ? help Back to Top
Source Description
UniProtAuxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs). Seems to act as transcriptional activator. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Regulates both stamen and gynoecium maturation. Promotes jasmonic acid production. Partially redundant with ARF6. Involved in fruit initiation. Acts as an inhibitor to stop further carpel development in the absence of fertilization and the generation of signals required to initiate fruit and seed development. {ECO:0000269|PubMed:12036261, ECO:0000269|PubMed:16107481, ECO:0000269|PubMed:16829592}.
Function -- GeneRIF ? help Back to Top
  1. Findings indicate that miR167 is a pivotal gene that mediates nodule formation and development via its target GmARF8 genes, which are important for an active cellular response to local auxin accumulation in root cortical cells. [GmARF8a]
    [PMID: 25941314]
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00033PBMTransfer from AT5G37020Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapGlyma.02G239600.4.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by miR167. {ECO:0000269|PubMed:17021043}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0150360.0AP015036.1 Vigna angularis var. angularis DNA, chromosome 3, almost complete sequence, cultivar: Shumari.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_014624944.10.0auxin response factor 8 isoform X3
RefseqXP_014624946.10.0auxin response factor 8 isoform X3
RefseqXP_028215541.10.0auxin response factor 8-like isoform X4
RefseqXP_028215551.10.0auxin response factor 8-like isoform X4
SwissprotQ9FGV10.0ARFH_ARATH; Auxin response factor 8
TrEMBLA0A0R0L0T90.0A0A0R0L0T9_SOYBN; Auxin response factor
STRINGGLYMA02G40650.10.0(Glycine max)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G37020.10.0auxin response factor 8
Publications ? help Back to Top
  1. Liu N, et al.
    Down-regulation of AUXIN RESPONSE FACTORS 6 and 8 by microRNA 167 leads to floral development defects and female sterility in tomato.
    J. Exp. Bot., 2014. 65(9): p. 2507-20
    [PMID:24723401]
  2. Minato N, et al.
    The phytoplasmal virulence factor TENGU causes plant sterility by downregulating of the jasmonic acid and auxin pathways.
    Sci Rep, 2014. 4: p. 7399
    [PMID:25492247]
  3. Ortega-Amaro MA, et al.
    Overexpression of AtGRDP2, a novel glycine-rich domain protein, accelerates plant growth and improves stress tolerance.
    Front Plant Sci, 2014. 5: p. 782
    [PMID:25653657]
  4. Wang Y, et al.
    MicroRNA167-Directed Regulation of the Auxin Response Factors GmARF8a and GmARF8b Is Required for Soybean Nodulation and Lateral Root Development.
    Plant Physiol., 2015. 168(3): p. 984-99
    [PMID:25941314]
  5. Barik S, et al.
    Coevolution Pattern and Functional Conservation or Divergence of miR167s and their targets across Diverse Plant Species.
    Sci Rep, 2015. 5: p. 14611
    [PMID:26459056]
  6. Pashkovskiy PP,Kartashov AV,Zlobin IE,Pogosyan SI,Kuznetsov VV
    Blue light alters miR167 expression and microRNA-targeted auxin response factor genes in Arabidopsis thaliana plants.
    Plant Physiol. Biochem., 2016. 104: p. 146-54
    [PMID:27031426]
  7. Mlotshwa S,Pruss GJ,MacArthur JL,Reed JW,Vance V
    Developmental Defects Mediated by the P1/HC-Pro Potyviral Silencing Suppressor Are Not Due to Misregulation of AUXIN RESPONSE FACTOR 8.
    Plant Physiol., 2016. 172(3): p. 1853-1861
    [PMID:27688620]
  8. Wójcikowska B,Gaj MD
    Expression profiling of AUXIN RESPONSE FACTOR genes during somatic embryogenesis induction in Arabidopsis.
    Plant Cell Rep., 2017. 36(6): p. 843-858
    [PMID:28255787]
  9. Zhang GZ, et al.
    Ectopic expression of UGT84A2 delayed flowering by indole-3-butyric acid-mediated transcriptional repression of ARF6 and ARF8 genes in Arabidopsis.
    Plant Cell Rep., 2017. 36(12): p. 1995-2006
    [PMID:29027578]
  10. Zheng K, et al.
    Involvement of PACLOBUTRAZOL RESISTANCE6/KIDARI, an Atypical bHLH Transcription Factor, in Auxin Responses in Arabidopsis.
    Front Plant Sci, 2017. 8: p. 1813
    [PMID:29114256]
  11. Liu Z, et al.
    ARF2-ARF4 and ARF5 are Essential for Female and Male Gametophyte Development in Arabidopsis.
    Plant Cell Physiol., 2018. 59(1): p. 179-189
    [PMID:29145642]
  12. Ghelli R, et al.
    A Newly Identified Flower-Specific Splice Variant of AUXIN RESPONSE FACTOR8 Regulates Stamen Elongation and Endothecium Lignification in Arabidopsis.
    Plant Cell, 2018. 30(3): p. 620-637
    [PMID:29514943]