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 Medtr4g060460.1
Common NameMTR_4g060460
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: 793aa    MW: 88098.6 Da    PI: 6.8057
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Medtr4g060460.1genomeMtView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.94e-23166267199
                      EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                      f+k+lt sd++++g +++p++ ae++      +++ + s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv++++L +gD v+F   + +
  Medtr4g060460.1 166 FCKTLTVSDTSTHGGFSVPRRAAEDCfppldyKLQRP-SQELVAKDLHGVEWKFRHIYRGQPRRHLLTTGWSIFVNQKNLVSGDAVLFL--RGQ 256
                      99****************************9977754.569************************************************..348 PP

                      EE..EEEEE-S CS
               B3  89 efelvvkvfrk 99 
                      ++el+++++r+
  Medtr4g060460.1 257 NGELRLGIRRA 267
                      9999***9986 PP
2Auxin_resp119.33e-39292374182
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsL 82 
                      +a+a+stks+F+v+Y+Pras++eFvv+++k++k++k+++++G+Rfkm++e+++s+err+ sG+ +g++dldp+rWp+SkWr+L
  Medtr4g060460.1 292 VANAISTKSMFHVFYSPRASHAEFVVPYQKYVKSIKNPMTIGTRFKMRIEMDESPERRCsSGMLIGINDLDPYRWPKSKWRCL 374
                      689********************************************************9**********************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.35E-42158277IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.4E-39159277IPR015300DNA-binding pseudobarrel domain
CDDcd100171.93E-21164266No hitNo description
SMARTSM010198.0E-24166268IPR003340B3 DNA binding domain
PROSITE profilePS5086312.887166268IPR003340B3 DNA binding domain
PfamPF023623.7E-21166267IPR003340B3 DNA binding domain
PfamPF065071.7E-33292374IPR010525Auxin response factor
PROSITE profilePS5174521.135663745IPR000270PB1 domain
SuperFamilySSF542774.22E-10665742No 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:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 793 aa     Download sequence    Send to blast
MEIDLNNEVI EVEKNALCHK ECEKGFCFCV SCLSPSTCSS SSSTSPLVSS SYLELWHACA  60
GPLTSLPKKG NVVVYFPQGH LEQFASFSPF KQLEIPNYDL QPQIFCRVVN VQLLANKEND  120
EVYTQVTLLP QAELAGMHME GKEVEELEGD EEGDGGSPTK STPHMFCKTL TVSDTSTHGG  180
FSVPRRAAED CFPPLDYKLQ RPSQELVAKD LHGVEWKFRH IYRGQPRRHL LTTGWSIFVN  240
QKNLVSGDAV LFLRGQNGEL RLGIRRAVRP RNGLPESIVG NQNCYPNFLS SVANAISTKS  300
MFHVFYSPRA SHAEFVVPYQ KYVKSIKNPM TIGTRFKMRI EMDESPERRC SSGMLIGIND  360
LDPYRWPKSK WRCLMVRWDD DTETNHQDRV SPWEIDPSSP QPPLSIQSSP RLKKPRTGLL  420
VASPNHLITG MNPNGISGMM GFEESVRSPK VLQGQENTGF MSLYYGCDKV TNQPGFELST  480
SSHHQNLAST GIGKVVTSSE LMSVHPFSYA GFMESNNFPR VLQGQEICKL KSLSGKVDFN  540
IGAWGTKPSF QSACFPYGDI DKSNQASMFS SKHTSFMSDN VPFNTPSIVA GDIRKEVGRS  600
GSNLLPNEHK LQDNVSASAS LVDTNRNAPN DNNVKGKANS CKLFGFPLSG EPSSQNLQNT  660
AKRSCTKVHK QGSLVGRAID LSRLSGYNDL LSELEKLFGM EGLLRDSDKG WRILYTDSEN  720
DIMVVGDDPW HEFCDVVSKI HIYTKEEVEK MTFGMMTNDD THSCLDQAPV IIEPSKSSSV  780
GQPDYSPTVV RV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1185439722354Auxin response factor 1
4ldw_A1e-1185439722354Auxin response factor 1
4ldw_B1e-1185439722354Auxin response factor 1
4ldx_A1e-1185439722354Auxin response factor 1
4ldx_B1e-1185439722354Auxin response factor 1
4ldy_A1e-1185439722354Auxin response factor 1
4ldy_B1e-1185439722354Auxin 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
PlantRegMapMedtr4g060460.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1521760.0AC152176.5 Medicago truncatula clone mth2-65c4, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024636758.10.0auxin response factor 4 isoform X1
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLG7JQF50.0G7JQF5_MEDTR; Auxin response factor
STRINGXP_004505967.10.0(Cicer arietinum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF52363252
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]