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_sc000336.1_g00026.1
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: 840aa    MW: 92889.9 Da    PI: 7.4101
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Itr_sc000336.1_g00026.1genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.18e-24189290199
                              EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EE CS
                       B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfv 80 
                              f+k+lt sd++++g +++p++ ae++      +++ + s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv+++gL +gD v
  Itr_sc000336.1_g00026.1 189 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyKEQ-RPSQELVAKDLHGVEWKFRHIYRGQPRRHLLTTGWSIFVSQKGLVSGDAV 273
                              99****************************86333.45679********************************************* PP

                              EEEE-SSSEE..EEEEE-S CS
                       B3  81 vFkldgrsefelvvkvfrk 99 
                              +F   + +++ l+++++r+
  Itr_sc000336.1_g00026.1 274 LFL--RGEGGDLRLGIRRA 290
                              ***..4489999**99986 PP
2Auxin_resp921e-303504151782
               Auxin_resp  17 PrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                              P as+++F+v+++k++k++++++ vG+Rfkm+++ +ds+err+sG+v+g+sd+dp+rWp+SkWr+L
  Itr_sc000336.1_g00026.1 350 PGASHADFIVPYQKYVKSINNRIPVGTRFKMRYDYDDSPERRFSGIVTGISDMDPYRWPGSKWRCL 415
                              999**************************************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.4E-44182314IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.3E-40182302IPR015300DNA-binding pseudobarrel domain
CDDcd100172.93E-22187289No hitNo description
SMARTSM010191.5E-23189291IPR003340B3 DNA binding domain
PfamPF023621.1E-21189290IPR003340B3 DNA binding domain
PROSITE profilePS5086313.056189291IPR003340B3 DNA binding domain
PfamPF065077.8E-25350415IPR010525Auxin response factor
PfamPF023093.5E-6704793IPR033389AUX/IAA domain
SuperFamilySSF542771.91E-10705788No hitNo description
PROSITE profilePS5174522.1709793IPR000270PB1 domain
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:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 840 aa     Download sequence    Send to blast
MEIDLNHAVS GGVEKKQKNN ASFCNGECEK GGGGGCAYCC LSTSTSSSCS SSNASSSSSA  60
PPSSIYMELW HACAGPLTSL PKKGNVVVYF PQGHLEQAAT SASPFPPSFE MDLPTLALHP  120
QIFCSVQDVQ LLANKENDEV YTKLTLLPIP EPVGMNLEGK EHEDLGIDED GGGGGGGGAA  180
PVKSTSHMFC KTLTASDTST HGGFSVPRRA AEDCFPPLDY KEQRPSQELV AKDLHGVEWK  240
FRHIYRGQPR RHLLTTGWSI FVSQKGLVSG DAVLFLRGEG GDLRLGIRRA ARPRNGLPES  300
IIKNQSSYSS VLSAVTNAVS CKSTFHVFYS LSQVGRTIGL VTTRFQIRLP GASHADFIVP  360
YQKYVKSINN RIPVGTRFKM RYDYDDSPER RFSGIVTGIS DMDPYRWPGS KWRCLMVRWD  420
DDVMSNHQER VSPWDIDSSV SLPPLNIQSS PRMKKLRASQ PALPHESHFS EMEESVRSSK  480
VLQGQENIGL VSPLYGKLNC HPEFEQQTVP RRDFMPAGIE KRKLGELFQT QPPAMYTGFL  540
ESNRFPKVLQ GQEICSLRSL AGKKDMKFGS WAKPEQGCNV FQAYQSPKNN FYHLDSQGMR  600
NNTFLPYNGI YRAGQNPVMF PHMNDYPREN HVLKPISIQN GKRREEGTIQ NFTSEQIPLE  660
KPSKLATPET HFKDEKSDPL SGTGGPCKLF GFSLTKEPST LSSQGSSKRS CTKVHKQGSL  720
VGRAIDLSRL NGYEDLLIEL EKLFGMDGLL RDPNKGWRIL YTDSENDMMV VGDDPWHEFC  780
EVVSKIHIYT QEEVDKMSIG GISDDTQSCL EEAPPITTDA SKSSSVGLPN PNSSPTVSKI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A1e-107544463356Auxin response factor 1
4ldy_B1e-107544463356Auxin 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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019199537.10.0PREDICTED: auxin response factor 4-like
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLA0A1S3ZD940.0A0A1S3ZD94_TOBAC; Auxin response factor
TrEMBLA0A1U7WR300.0A0A1U7WR30_NICSY; Auxin response factor
STRINGXP_009779766.10.0(Nicotiana sylvestris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA51432234
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]