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 Medtr3g064050.1
Common NameMTR_3g064050
Organism
Medicago truncatula
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Medicago
Family ARF
Protein Properties Length: 850aa    MW: 94266.8 Da    PI: 6.3444
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Medtr3g064050.1genomeMtView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.64.7e-23130231199
                      EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 
                      f+k+lt sd++++g +++p++ ae+        +++++  ++l+ +d++  +W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F   ++
  Medtr3g064050.1 130 FCKTLTASDTSTHGGFSVPRRAAEKVfppldfsQQPPA--QELIARDLHDVEWKFRHIFRGQPKRHLLTTGWSIFVSAKRLVAGDSVLFI--WN 219
                      99*****************************8544444..48************************************************..88 PP

                      SEE..EEEEE-S CS
               B3  88 sefelvvkvfrk 99 
                      ++ +l+++++r+
  Medtr3g064050.1 220 EKNQLLLGIRRA 231
                      99999****997 PP
2Auxin_resp115.54.8e-38256339183
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                      aaha +t+s F+v+YnPras+seFv++++k+ ka++ +++svGmRf+m fete+ss rr++Gt++g+sdld vrW+nS+Wrs+k
  Medtr3g064050.1 256 AAHASATNSCFTVFYNPRASPSEFVIPLSKYIKAVYhTRISVGMRFRMLFETEESSVRRYMGTITGISDLDAVRWQNSHWRSVK 339
                      799********************************9789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.92E-49114259IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.6E-41123245IPR015300DNA-binding pseudobarrel domain
CDDcd100172.12E-21129230No hitNo description
SMARTSM010196.4E-24130232IPR003340B3 DNA binding domain
PROSITE profilePS5086312.308130232IPR003340B3 DNA binding domain
PfamPF023622.5E-21130231IPR003340B3 DNA binding domain
PfamPF065072.2E-33256339IPR010525Auxin response factor
PfamPF023091.6E-7713807IPR033389AUX/IAA domain
SuperFamilySSF542777.19E-7718797No hitNo description
PROSITE profilePS5174523.809723807IPR000270PB1 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:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 850 aa     Download sequence    Send to blast
MKLSTSGLGQ QGHEGGGGEK KCLNSELWHA CAGPLVSLPT AGTRVVYFPQ GHSEQVSATT  60
NREIDGQIPN YPSLPPQLVC QLHNVTMHAD VETDEVYAQM TLQPLTPEEQ KDTFLPMELG  120
IPSKQPSNYF CKTLTASDTS THGGFSVPRR AAEKVFPPLD FSQQPPAQEL IARDLHDVEW  180
KFRHIFRGQP KRHLLTTGWS IFVSAKRLVA GDSVLFIWNE KNQLLLGIRR ANRPQTVMPS  240
SVLSSDSMHI GLLAAAAHAS ATNSCFTVFY NPRASPSEFV IPLSKYIKAV YHTRISVGMR  300
FRMLFETEES SVRRYMGTIT GISDLDAVRW QNSHWRSVKV GWDESTAGER QPRVSLWEIE  360
PLTTFPMYPS LFPLRLKRPW HPGTSSLLDG RDEATNALMW MRGGPADQGL NSLNFQGAGM  420
LPWMQQRLDP TLLGNDQNQQ YQAMLAAAGM QNMGGGYLMR PQMVNFQQQP THYLQSGNNN  480
SPLQLHQPQS IQQSVSSNMM QPQQTQILTE NLSQHLLQKP NNNQELQAQQ QQHAYQDTLL  540
VQNDQLHQRQ QQSNVPSPSY SKPDFLDSNI KFPASVPSGQ NMLGSLCPEG TGNLLNLSSL  600
TRSGQSLMNE QLPQQSWTPK YGNMQVNAFG SAMSHAQYSG KDSAIVPPHC DSDAQNHTLS  660
GVNIDSSGLL LPTTVPNYTA STTDTGASTQ LGESGFQGSL YACMQDSSFL QNAEQIDTQN  720
QNPTFVKVYK SGSVGRSLDI SRFSCYRELR EELGQMFGIE GKLEDPLRSG WQLVFVDREN  780
DVLLLGDDPW ESFVNNVWYI KILSPEDIQK MGDQAVEMHG LGSGQRLNGT GESHHIVSGQ  840
PPSIGSLDY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1591736045388Auxin response factor 5
Search in ModeBase
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapMedtr3g064050.1
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
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1515290.0AC151529.20 Medicago truncatula clone mth2-7n23, complete sequence.
GenBankCU4682440.0CU468244.3 M.truncatula DNA sequence from clone MTH2-16M9 on chromosome 3, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003600594.10.0auxin response factor 8
SwissprotQ9FGV10.0ARFH_ARATH; Auxin response factor 8
TrEMBLG7J7V10.0G7J7V1_MEDTR; Auxin response factor
STRINGAES708450.0(Medicago truncatula)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF49582850
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. Young ND, et al.
    The Medicago genome provides insight into the evolution of rhizobial symbioses.
    Nature, 2011. 480(7378): p. 520-4
    [PMID:22089132]
  2. 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]
  3. 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]
  4. 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]
  5. 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]
  6. 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]
  7. 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]
  8. 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]
  9. 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]
  10. 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]
  11. 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]
  12. 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]
  13. 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]