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 Potri.006G127500.1
Common NamePOPTR_0006s12930g
Organism
Populus trichocarpa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
Family ARF
Protein Properties Length: 706aa    MW: 77808.4 Da    PI: 7.0852
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.006G127500.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B371.79.4e-23124225199
                         EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                         f k+lt+sd+++ g +++p+ +ae +         ++ +  tl  +d +g++W++++iyr++++r++lt+GW+ Fv+ ++L +gD+vvF  
  Potri.006G127500.1 124 FAKTLTQSDANNGGGFSVPRYCAEMIfprldytADPPVQ--TLLAKDVHGETWKFRHIYRGTPRRHLLTTGWSPFVNHKKLIAGDSVVFF- 211
                         89*********************999****997555555..8999*********************************************. PP

                         -SSSEE..EEEEE-S CS
                  B3  85 dgrsefelvvkvfrk 99 
                          + +++ l+v+v+r+
  Potri.006G127500.1 212 -RAENGDLCVGVRRA 225
                         .3488889****996 PP
2Auxin_resp106.72.7e-35293376183
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                         a++ a+++ +FevvY+Pra t+eF+vk++ v++a++++++ GmRfkmafetedss++++ +Gtv +v+++d++ Wp+S+Wr+L+
  Potri.006G127500.1 293 AVTLAANGLPFEVVYYPRANTPEFCVKASLVKTAMQIRWCSGMRFKMAFETEDSSRISWfMGTVCSVQAADSLWWPHSPWRLLQ 376
                         678899****************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.3E-36114233IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.22E-29117235IPR015300DNA-binding pseudobarrel domain
CDDcd100171.26E-20123224No hitNo description
PfamPF023623.5E-20124225IPR003340B3 DNA binding domain
PROSITE profilePS5086312.675124226IPR003340B3 DNA binding domain
SMARTSM010192.8E-21124226IPR003340B3 DNA binding domain
PfamPF065072.1E-31293376IPR010525Auxin response factor
PROSITE profilePS5174517.061619697IPR000270PB1 domain
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: 706 aa     Download sequence    Send to blast
MITFMEAKDK LKEEADKCLD SQLWHACAGG MVQMPAVNSK VFYFPQGHAE HACEPVDFRN  60
LPRVSHILCR VSDIKFMADP ETDEVFAKIR LVPINSNELD LDDQEVAVNG GMEAAQDNNK  120
PVSFAKTLTQ SDANNGGGFS VPRYCAEMIF PRLDYTADPP VQTLLAKDVH GETWKFRHIY  180
RGTPRRHLLT TGWSPFVNHK KLIAGDSVVF FRAENGDLCV GVRRAKRTSG GGPESLWNPA  240
GGSSAVPSGG FGAFLREDEH KLMRSASGNG NGSKSNESLM GQGKVRAESV IQAVTLAANG  300
LPFEVVYYPR ANTPEFCVKA SLVKTAMQIR WCSGMRFKMA FETEDSSRIS WFMGTVCSVQ  360
AADSLWWPHS PWRLLQVTWD EPDLLQNVKR VSPWLVELAS NMAAIHFPPF SSPRKKLRLP  420
QHLDFPIDGQ FPMPIFSGNL LGPSSSFDFL PHNTPAGMQG ARHAHYGLPL SDPHLNKLQT  480
GLLRTGFPPL LDHTASLTKA SNVQTIPKPS MCEDVSCELT MAHSTQTSKK AVDVKIPQLV  540
LFGQPILAEQ QISLSCPGNA ASPVLTGNSS SEGNLDKMAN FSDGSVSTLH RRGLPECSSC  600
EELQWNKDKH QKSEPSLETG HCKVFMDSED VGRTLDLSLL GSYEELYRKL ANMFGLRNSE  660
KFSNVLYRDI NGITKHIGEE PFSDFFKTAR RLTIVTDSSS GNVGI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A3e-78339732388Auxin response factor 5
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, culms, leaves and young panicles. {ECO:0000269|PubMed:17408882}.
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).
Cis-element ? help Back to Top
SourceLink
PlantRegMapPotri.006G127500.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKT5854790.0KT585479.1 Populus tomentosa auxin response factor 16 (ARF16) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006381448.20.0auxin response factor 18
SwissprotQ653H70.0ARFR_ORYSJ; Auxin response factor 18
TrEMBLA0A2K2A1C50.0A0A2K2A1C5_POPTR; Auxin response factor
STRINGPOPTR_0006s12930.10.0(Populus trichocarpa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF63734138
Representative plantOGRP5261578
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G30080.10.0auxin response factor 16
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Huang J,Li Z,Zhao D
    Deregulation of the OsmiR160 Target Gene OsARF18 Causes Growth and Developmental Defects with an Alteration of Auxin Signaling in Rice.
    Sci Rep, 2016. 6: p. 29938
    [PMID:27444058]