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 Tp57577_TGAC_v2_mRNA16079
Organism
Trifolium pratense
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; Trifolium
Family ARF
Protein Properties Length: 794aa    MW: 88611.2 Da    PI: 6.9574
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Tp57577_TGAC_v2_mRNA16079genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.72.2e-23158259199
                                EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT- CS
                         B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegD 78 
                                f+k+lt sd++++g +++p++ ae++      +++ + s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv++++L +gD
  Tp57577_TGAC_v2_mRNA16079 158 FCKTLTVSDTSTHGGFSVPRRAAEDCfppldyKLQRP-SQELVAKDLHGVEWKFRHIYRGQPRRHLLTTGWSIFVNQKNLVSGD 240
                                99****************************9977754.569******************************************* PP

                                EEEEEE-SSSEE..EEEEE-S CS
                         B3  79 fvvFkldgrsefelvvkvfrk 99 
                                 v+F   +++++el+++++r+
  Tp57577_TGAC_v2_mRNA16079 241 AVLFL--RSENGELRLGIRRA 259
                                *****..4589999****996 PP
2Auxin_resp119.72.3e-39284366182
                 Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsL 82 
                                +a+a+stks+F+v+Y+Pras++eFvv+++k++k++k+++++G+Rfkm+fet++s+err  +G+ +g++dldp+rWp+SkWr+L
  Tp57577_TGAC_v2_mRNA16079 284 VANAISTKSMFHVFYSPRASHAEFVVPCQKYVKSIKNPMTIGTRFKMRFETDESPERRSsTGMLIGMNDLDPYRWPKSKWRCL 366
                                689******************************************************999**********************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.104.0E-39150269IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.83E-42150269IPR015300DNA-binding pseudobarrel domain
CDDcd100175.60E-21156258No hitNo description
PROSITE profilePS5086313.084158260IPR003340B3 DNA binding domain
PfamPF023622.6E-21158259IPR003340B3 DNA binding domain
SMARTSM010191.5E-23158260IPR003340B3 DNA binding domain
PfamPF065071.5E-33284366IPR010525Auxin response factor
PfamPF023091.2E-6658749IPR033389AUX/IAA domain
PROSITE profilePS5174520.899665747IPR000270PB1 domain
SuperFamilySSF542771.24E-9665744No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009725Biological Processresponse to hormone
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: 794 aa     Download sequence    Send to blast
MEIDLNHEVT EIDKNVLCIK ECEKGCCLSP SNCSSTSPLV CSSYLELWHA CAGPLISLPK  60
KGNVVVYFPQ GHLEQFASFS PFKQLEIPTY DLQPQIFCRV VNIQLLANKE NDEVYTQVTL  120
LPQAEFAGLH TEGKEVEELE GDEEGDEGST TKSTPHMFCK TLTVSDTSTH GGFSVPRRAA  180
EDCFPPLDYK LQRPSQELVA KDLHGVEWKF RHIYRGQPRR HLLTTGWSIF VNQKNLVSGD  240
AVLFLRSENG ELRLGIRRAI RPRNGLPESI VGNQNCYPNF LSSVANAIST KSMFHVFYSP  300
RASHAEFVVP CQKYVKSIKN PMTIGTRFKM RFETDESPER RSSTGMLIGM NDLDPYRWPK  360
SKWRCLMVRW DEDIETNHQD RVSPWEIDPS SPLPPLSIQS SPRLKKPRTG LQVSSPNHLI  420
TGMNPNAGSS GMTGFEESIR SPKVLQGQEN AGFMSLYYGS DKKTTHQLGF ELSSSSHHHQ  480
NLASTGIGKV VTSSELMSVH PFSYAGFMEN NNFPRVLQGQ EICKLKSITG KVDFNIGQEI  540
CKLKSITGKV DFNIGSWGTK PNFQSAYFPF GDIHKDNQVN MFSSKHTTFL SDNVAFNTPT  600
TLAANIRKEV ANEHKLQDDI TNAASLGATN INVANDNNVK GKVNSCKLFG FPLSGETSSQ  660
NTAKRSCTKV HKQGSLVGRA IDLSRLSGYI DLLSELEKLF GMEGLLRDSN KGWRILYTDS  720
ENDIMVVGDD PWHEFCDVVS KIHIYTKEEV EKMTFGMTND DTHSCLEQAP VTMEPSKSSS  780
VGQPDYSPKV VRV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-119283891354Auxin response factor 1
4ldw_A1e-119283891354Auxin response factor 1
4ldw_B1e-119283891354Auxin response factor 1
4ldx_A1e-118283891354Auxin response factor 1
4ldx_B1e-118283891354Auxin response factor 1
Search in ModeBase
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
PlantRegMapTp57577_TGAC_v2_mRNA16079
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
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
TrEMBLA0A2Z6NPQ80.0A0A2Z6NPQ8_TRISU; 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. 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]
  2. 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]
  3. 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]
  4. 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]
  5. Guan C, et al.
    Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis.
    Curr. Biol., 2017. 27(19): p. 2940-2950.e4
    [PMID:28943086]
  6. 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]