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 Medtr2g093740.12
Common NameMTR_2g093740
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: 621aa    MW: 69488.4 Da    PI: 8.8419
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Medtr2g093740.12genomeMtView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.91.9e-2338139199
                       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++      + +++ s++l+ +d++g  W++++iyr++++r++lt+GW+ Fv++++L +gD v+F   + 
  Medtr2g093740.12  38 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyK-QQRPSQELVAKDLHGVGWKFRHIYRGQPRRHLLTTGWSIFVSQKNLVSGDAVLFL--RG 127
                       99****************************963.3445679************************************************..44 PP

                       SEE..EEEEE-S CS
                B3  88 sefelvvkvfrk 99 
                       +++el+++++r+
  Medtr2g093740.12 128 ENGELRLGIRRA 139
                       99999****996 PP
2Auxin_resp119.92e-39164246182
        Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsL 82 
                       +a+a+s ks+F+v+Y+Pras+++Fvv+++k+ k+++++v++G+Rfkm+fe+++s+err+ sG+v+g+sdldp++Wp+SkWr+L
  Medtr2g093740.12 164 VANAISAKSMFHVFYSPRASHADFVVPYQKYAKSIRNPVTIGTRFKMKFEMDESPERRCsSGIVTGMSDLDPYKWPKSKWRCL 246
                       689********************************************************9**********************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.7E-4334148IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.5E-3935150IPR015300DNA-binding pseudobarrel domain
CDDcd100171.99E-2136138No hitNo description
SMARTSM010198.9E-2338140IPR003340B3 DNA binding domain
PfamPF023622.3E-2138139IPR003340B3 DNA binding domain
PROSITE profilePS5086312.94338140IPR003340B3 DNA binding domain
PfamPF065072.3E-33164246IPR010525Auxin response factor
PROSITE profilePS5174520.726552620IPR000270PB1 domain
SuperFamilySSF542778.34E-8555620No hitNo description
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:0010050Biological Processvegetative phase change
GO:0010158Biological Processabaxial cell fate specification
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 621 aa     Download sequence    Send to blast
MCCIQLAGMC LDDKEPEGLE ADDEGNGRSP TKLASHMFCK TLTASDTSTH GGFSVPRRAA  60
EDCFPPLDYK QQRPSQELVA KDLHGVGWKF RHIYRGQPRR HLLTTGWSIF VSQKNLVSGD  120
AVLFLRGENG ELRLGIRRAA RPRNGLPESI IGNQSCSPSF LSSVANAISA KSMFHVFYSP  180
RASHADFVVP YQKYAKSIRN PVTIGTRFKM KFEMDESPER RCSSGIVTGM SDLDPYKWPK  240
SKWRCLMVRW DEDIGANHQD RVSPWEIDPS TSLPPLNIQS SRRLKKLRTG LHVESPSHFI  300
TAGDSGFMDF DESIRSSKVL QGQEKTSFMS LYYGCDTVTK QKEFDINSLR HTNLASNGAR  360
KITSSEFTRI QPSSYADFTE MNRFPRVLQA QEIYPLRSLT GKVDLNLNSW GKTNVSYTKY  420
NLHNATKLNF HSLGSEVLQN SSFPYGDIHK VGQGSSMLCS KPTNFQLGNV SFNTPSSQIG  480
ALRNEVGLSS FKIRNEQKLQ NDISAATSLD ANIRISNDEN FKEMVNPCKL FGFSLSAAAE  540
TTSQNLQNSA KRSCTKVHKQ GSLVGRAIDL SRLSSYNDLV SELERLFGME GLLRDPDKGW  600
RILYTDSEND IMVVGDDPWQ *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A8e-8911272101357Auxin response factor 1
4ldy_B8e-8911272101357Auxin response factor 1
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
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). Could act as transcriptional activator or repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. {ECO:0000269|PubMed:12036261}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapMedtr2g093740.12
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1508910.0AC150891.3 Medicago truncatula chromosome 2 clone mth2-76a9, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003597191.20.0auxin response factor 4 isoform X2
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLA0A072VC130.0A0A072VC13_MEDTR; Auxin response factor
STRINGAES674420.0(Medicago truncatula)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60450.10.0auxin response factor 4
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. Ozerova LV,Krasnikova MS,Troitsky AV,Solovyev AG,Morozov SY
    TAS3 Genes for small ta-siARF RNAs in plants belonging to subtribe Senecioninae: occurrence of prematurely terminated RNA precursors.
    Mol. Gen. Mikrobiol. Virusol., 2013.
    [PMID:24003511]
  3. Machida C,Nakagawa A,Kojima S,Takahashi H,Machida Y
    The complex of ASYMMETRIC LEAVES (AS) proteins plays a central role in antagonistic interactions of genes for leaf polarity specification in Arabidopsis.
    Wiley Interdiscip Rev Dev Biol, 2015 Nov-Dec. 4(6): p. 655-71
    [PMID:26108442]
  4. 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]
  5. Matsumura Y, et al.
    A genetic link between epigenetic repressor AS1-AS2 and a putative small subunit processome in leaf polarity establishment of Arabidopsis.
    Biol Open, 2016. 5(7): p. 942-54
    [PMID:27334696]
  6. Guan C, et al.
    Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis.
    Curr. Biol., 2017. 27(19): p. 2940-2950.e4
    [PMID:28943086]
  7. 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]