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.002G055000.1
Common NamePOPTR_0002s05590g
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: 938aa    MW: 103535 Da    PI: 6.6027
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.002G055000.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.51.3e-23133234199
                         EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                         f+k+lt sd++++g +++p++ ae+        +   +  ++l+ +d++ ++W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F  
  Potri.002G055000.1 133 FCKTLTASDTSTHGGFSVPRRAAEKVfppldfsQT--PPAQELIARDLHDNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI- 220
                         99*****************************7444..44459************************************************. PP

                         -SSSEE..EEEEE-S CS
                  B3  85 dgrsefelvvkvfrk 99 
                          ++++ +l+++++r+
  Potri.002G055000.1 221 -WNEKNQLLLGIRRA 234
                         .8899999****997 PP
2Auxin_resp117.41.2e-38259342183
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                         aahaa+t+s F+++YnPr+s+seFv+++ k+ ka++ ++vsvGmRf+m fete+ss rr++Gt++g+sdldp rWpnS+Wrs+k
  Potri.002G055000.1 259 AAHAAATNSRFTIFYNPRTSPSEFVIPLVKYIKAVYhTRVSVGMRFRMLFETEESSVRRYMGTITGISDLDPARWPNSHWRSVK 342
                         79*********************************9789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.22E-48118262IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.1E-41125248IPR015300DNA-binding pseudobarrel domain
CDDcd100171.16E-21132233No hitNo description
PROSITE profilePS5086312.52133235IPR003340B3 DNA binding domain
PfamPF023626.7E-22133234IPR003340B3 DNA binding domain
SMARTSM010191.9E-24133235IPR003340B3 DNA binding domain
PfamPF065077.4E-34259342IPR010525Auxin response factor
SuperFamilySSF542775.23E-7775858No hitNo description
PfamPF023091.2E-7776866IPR033389AUX/IAA domain
PROSITE profilePS5174522.636784868IPR000270PB1 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: 938 aa     Download sequence    Send to blast
MRLSSSSSST TGFNQVTQEG DNKCLNSELW HACAGPLVSL PHVGSRAVYF PQGHSEQVAA  60
STNKEVDAHI PNYPSLPAQL ICQLHNVTMH ADVETDEVYA QMTLQPLSPE DKKDAYLLPA  120
ELGTASKQPS NYFCKTLTAS DTSTHGGFSV PRRAAEKVFP PLDFSQTPPA QELIARDLHD  180
NEWKFRHIFR GQPKRHLLTT GWSVFVSAKR LVAGDSVLFI WNEKNQLLLG IRRANRPQTV  240
MPSSVLSSDS MHIGLLAAAA HAAATNSRFT IFYNPRTSPS EFVIPLVKYI KAVYHTRVSV  300
GMRFRMLFET EESSVRRYMG TITGISDLDP ARWPNSHWRS VKVGWDESTA GERQPRVSLW  360
EIEPLTTFPM YPSAFPMRLK RPWPSGLPSF HAGLKDDDLS INSPMMWLQG GVGDLGVHSL  420
NFQNFGAAPW IQPRFEASMP ALQPDVYQTM AAAALQEMRT VESSKLASQS LLQFQQSQNL  480
STGPAALVQR QMLQQSNLQN AFLQNFQENQ ASTQTQLLQQ QLQQHIQYTD QQQQQQQRHQ  540
PQHQHQHQHQ QVQQPKQLNE LSAQQQIPNV ISALPHLTSV APSHSPSLQA IPSQCQQQAF  600
SEPLGNLIAA SGVSSVPSIM GSLPQDRGHL LNSNGSNPVS SSALLSKQAA FGPQLSSGAA  660
PGVLPQVEQS GTTQSAVSDL ATLLAPFSGR EYSTYQGAND PQNNLLFGVN IDSSTFMLQH  720
GIPNLRNIGT ENDPLSMPFT ASTFTSATGS DIPLTSDMTA SSCVDESGFL QSSENVDQVN  780
PSTRTFVKVH KSGSYGRSLD ISKFSSYDEL RSELARLFCL EGQLEDRQRS GWQLVFVDRE  840
NDVLLLGDDP WQEFVNNVWY IKILSPLEVQ QMGKEGLTSA ASVPSQKLSN STSDGYMNRQ  900
EFRNSSNPDG YLNRQDFRNS SNGIASMGSL DYQGRCS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1611836343388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pth.93940.0leaf
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).
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.002G055000.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEF1471320.0EF147132.1 Populus trichocarpa clone WS01228_B04 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024451058.10.0auxin response factor 6 isoform X1
SwissprotA2X1A10.0ARFF_ORYSI; Auxin response factor 6
SwissprotQ6H6V40.0ARFF_ORYSJ; Auxin response factor 6
TrEMBLA0A2K2BDW20.0A0A2K2BDW2_POPTR; Auxin response factor
STRINGPOPTR_0002s05590.10.0(Populus trichocarpa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF17653488
Representative plantOGRP8561456
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G30330.10.0auxin response factor 6
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]