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 Medtr2g005240.1
Common NameMTR_2g005240
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: 672aa    MW: 74980.2 Da    PI: 5.9543
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Medtr2g005240.1genomeMtView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B370.42.3e-22125225198
                      EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 
                      f+k+lt sd++++g +++ +++a+++       ++++ +  +l+ +d++g++W +++i+r++++r++lt+GW+ Fv++++L +gD ++F   + 
  Medtr2g005240.1 125 FCKTLTASDTSTHGGFSVLRRHADDClppldmtQQPPWQ--ELVATDLHGNEWHFRHIFRGQPRRHLLTTGWSVFVSSKKLVAGDAFIFL--RG 214
                      99****************************975444444..8************************************************..44 PP

                      SEE..EEEEE- CS
               B3  88 sefelvvkvfr 98 
                      +++el+v+v+r
  Medtr2g005240.1 215 ENGELRVGVRR 225
                      9999*****97 PP
2Auxin_resp112.83.3e-37251333183
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                      a+ha+st++ F+v+Y+Pr+s+seF+v+++k+++a ++k+svGmRfkm+fe+++++err+sGt+vgv+d +++ W +S+WrsLk
  Medtr2g005240.1 251 ASHAISTGTLFSVFYKPRTSRSEFIVSINKYLEARNHKLSVGMRFKMRFEGDEVPERRFSGTIVGVEDNKSSVWADSEWRSLK 333
                      789******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019367.06E-44114254IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.109.6E-41121240IPR015300DNA-binding pseudobarrel domain
CDDcd100177.44E-21123225No hitNo description
PROSITE profilePS5086311.251125227IPR003340B3 DNA binding domain
PfamPF023624.3E-20125225IPR003340B3 DNA binding domain
SMARTSM010191.2E-21125227IPR003340B3 DNA binding domain
PfamPF065072.6E-35251333IPR010525Auxin response factor
PfamPF023096.1E-11544637IPR033389AUX/IAA domain
PROSITE profilePS5174524.846547640IPR000270PB1 domain
SuperFamilySSF542771.67E-10549624No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009734Biological Processauxin-activated signaling pathway
GO:0010150Biological Processleaf senescence
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0042802Molecular Functionidentical protein binding
Sequence ? help Back to Top
Protein Sequence    Length: 672 aa     Download sequence    Send to blast
MASNHMSAVT SRAGSTNDAL YKELWHACAG PLVTLPREGE RVYYFPQGHM EQLEASMNQG  60
LEQQMPSFNL PSKILCKVVN IHLRAEPETD EVYAQITLLP ETDQSEVTSP DDPLPEPPRC  120
TVHSFCKTLT ASDTSTHGGF SVLRRHADDC LPPLDMTQQP PWQELVATDL HGNEWHFRHI  180
FRGQPRRHLL TTGWSVFVSS KKLVAGDAFI FLRGENGELR VGVRRLMRQQ SNMPSSVISS  240
HSMHLGVLAT ASHAISTGTL FSVFYKPRTS RSEFIVSINK YLEARNHKLS VGMRFKMRFE  300
GDEVPERRFS GTIVGVEDNK SSVWADSEWR SLKVQWDEPS SILRPDRVSP WELEPLVSTP  360
PANSQPTQRN KRSRPPILPS TMTDSSLQGI WKSPADSPPF PYRDPQHGRD LYPSPRFSST  420
ATSFLGFGGN SPASNKSMYW SSRLENSTEP FSPVALEESG EKRQGTGNGC RLFGIQLLEN  480
SNAEESLQTA PLSGRVGDDR SVPSLDVESD QHSEPSNVNR SDIPSVSCDA DKSCLRSPQE  540
SQSRQIRSCT KVHMQGMAVG RAVDLTRFDG YEDLLRKLEE MFDIEGELCG ATKKWLVVYT  600
DNEDDMMMVG DDPWLEFCSV VRKMFIYTPE EVKKLSPKIG LPSNEEGKPS KLDSEAVVNP  660
EDRSSIVGPG C*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A0.023583357Auxin response factor 1
4ldw_A0.023583357Auxin response factor 1
4ldw_B0.023583357Auxin response factor 1
4ldx_A0.023583357Auxin response factor 1
4ldx_B0.023583357Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Mtr.127390.0root| stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in the sepals and carpels of young flower buds. At stage 10 of flower development, expression in the carpels becomes restricted to the style. Also expressed in anthers and filaments. At stage 13, expressed in the region at the top of the pedicel, including the abscission zone. {ECO:0000269|PubMed:16176952}.
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 repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Promotes flowering, stamen development, floral organ abscission and fruit dehiscence. Acts as repressor of IAA2, IAA3 and IAA7. {ECO:0000269|PubMed:12036261, ECO:0000269|PubMed:16176952}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00097PBMTransfer from AT1G59750Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapMedtr2g005240.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1405510.0AC140551.8 Medicago truncatula clone mth2-80i8, complete sequence.
GenBankAC1480970.0AC148097.7 Medicago truncatula clone mth2-15a20, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003592874.10.0auxin response factor 1
RefseqXP_024631839.10.0auxin response factor 1
SwissprotQ8L7G00.0ARFA_ARATH; Auxin response factor 1
TrEMBLG7IL560.0G7IL56_MEDTR; Auxin response factor
STRINGAES631250.0(Medicago truncatula)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF68022638
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G59750.40.0auxin response factor 1
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. Montesinos JC,Pastor-Cantizano N,Robinson DG,Marcote MJ,Aniento F
    Arabidopsis p24δ5 and p24δ9 facilitate Coat Protein I-dependent transport of the K/HDEL receptor ERD2 from the Golgi to the endoplasmic reticulum.
    Plant J., 2014. 80(6): p. 1014-30
    [PMID:25312353]
  3. Marais C, et al.
    The Qb-SNARE Memb11 interacts specifically with Arf1 in the Golgi apparatus of Arabidopsis thaliana.
    J. Exp. Bot., 2015. 66(21): p. 6665-78
    [PMID:26208648]
  4. 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]
  5. Zhang M,Hu X,Zhu M,Xu M,Wang L
    Transcription factors NF-YA2 and NF-YA10 regulate leaf growth via auxin signaling in Arabidopsis.
    Sci Rep, 2017. 7(1): p. 1395
    [PMID:28469131]