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 Itr_sc000842.1_g00003.1
Organism
Ipomoea trifida
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea
Family ARF
Protein Properties Length: 886aa    MW: 98606 Da    PI: 6.6096
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Itr_sc000842.1_g00003.1genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.13.5e-23173274199
                              EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EE CS
                       B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfv 80 
                              f+k+lt sd++++g +++p++ ae+       ++ +++ ++l+ +d++  +W++++i+r++++r++lt+GW+ Fv+a++L +gD+v
  Itr_sc000842.1_g00003.1 173 FCKTLTASDTSTHGGFSVPRRAAEKVfppldfSQTPPC-QELIARDLHDVEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSV 257
                              99*****************************7555555.59********************************************* PP

                              EEEE-SSSEE..EEEEE-S CS
                       B3  81 vFkldgrsefelvvkvfrk 99 
                              +F   ++++ +l+++++r+
  Itr_sc000842.1_g00003.1 258 LFI--WNEKNQLLLGIRRA 274
                              ***..8899999****997 PP
2Auxin_resp117.51.1e-38299382183
               Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                              aahaa+t+s F+v+YnPras+seFv++++k+ ka++ +++svGmRf+m fete+ss rr++Gt++g+ dldpvrW nS+Wrs+k
  Itr_sc000842.1_g00003.1 299 AAHAAATNSCFTVFYNPRASPSEFVIPLSKYIKAVYhTRISVGMRFRMLFETEESSVRRYMGTITGIGDLDPVRWANSHWRSVK 382
                              79*********************************9789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.09E-49157302IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.1E-41166288IPR015300DNA-binding pseudobarrel domain
CDDcd100171.15E-21172273No hitNo description
PROSITE profilePS5086312.083173275IPR003340B3 DNA binding domain
PfamPF023622.2E-21173274IPR003340B3 DNA binding domain
SMARTSM010191.4E-23173275IPR003340B3 DNA binding domain
PfamPF065073.3E-34299382IPR010525Auxin response factor
SuperFamilySSF542775.76E-7759834No hitNo description
PROSITE profilePS5174523.991760844IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009733Biological Processresponse to auxin
GO:0009908Biological Processflower development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 886 aa     Download sequence    Send to blast
MHSRFGVELR MGLSRGVGAR FRGVNLVGSL GFDETEMEMV LGWRKNMKLS TSGMGQQPHE  60
GENKCLNSEL WHACAGPLVC LPTVGSRVVY FPQGHSEQVA ATTNKEVDGQ IPNYPNLPPQ  120
LICQLHNVTM HADVETDEVY AQMTLQPLTP EEQKDTYLPV ELGIPSKQPT NYFCKTLTAS  180
DTSTHGGFSV PRRAAEKVFP PLDFSQTPPC QELIARDLHD VEWKFRHIFR GQPKRHLLTT  240
GWSVFVSAKR LVAGDSVLFI WNEKNQLLLG IRRATRPQTV MPSSVLSSDS MHIGLLAAAA  300
HAAATNSCFT VFYNPRASPS EFVIPLSKYI KAVYHTRISV GMRFRMLFET EESSVRRYMG  360
TITGIGDLDP VRWANSHWRS VKVGWDESTA GERQPRVSLW EIEPLTTFPM YSSLFPLRLK  420
RPWYPGPSSF QDSNNEVING MTWLRGEIGE QGGPQSLNVQ SFGMLPWMQQ RVDPAMLRTD  480
INQQYQAMLA AGMQNFGSAD LFKQQLMQFQ QPVQYLQASG SHNPLLQQQQ QVIQQPMSSH  540
MLPAQTQMLS DSLQRHPQQQ TSGQTEEPTQ QHAYQEAFPV SHDQLQQRPL SNIPSPSFSK  600
TNFADTNSKF APPVSPSSMQ SMLGSLCPEG SSNLLNFKRT GQSALNEHQP QQSWLPKFAN  660
SHISTCSNSV STPSYPGKEA SSQQETCAVD AHNQSFFGAS IDSPGLLLPT TLSSVTTSVV  720
ADVSSLPSGA SGFQNSPYGY VQDSSELVSS AGQDDQSTPR TFVKVYKSGY VGRSLDITRI  780
SSYHELRQEL AQMFGIEGLL EDPQRSGWQL VFVDRENDVL LLGDDPWEAF VNNVWYIKIL  840
SPEDVQKLGK QEAKSLSRNT IERMHGSGAD GRDHLSGFPS LGSLEY
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1596640351388Auxin response factor 5
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). 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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00033PBMTransfer from AT5G37020Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by miR167. {ECO:0000269|PubMed:17021043}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEF2168640.0EF216864.2 Ipomoea nil auxin response factor 8 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019172123.10.0PREDICTED: auxin response factor 8-like
SwissprotQ9FGV10.0ARFH_ARATH; Auxin response factor 8
TrEMBLA3F7710.0A3F771_IPONI; Auxin response factor
STRINGXP_009612885.10.0(Nicotiana tomentosiformis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA38572339
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. 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]
  2. 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]
  3. 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]
  4. 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]
  5. 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]
  6. 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]
  7. 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]
  8. 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]
  9. 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]
  10. 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]
  11. 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]
  12. 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]