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.001G358500.1
Common NamePOPTR_0001s36900g
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: 897aa    MW: 99202.4 Da    PI: 6.8715
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.001G358500.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3758.8e-24127228199
                         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.001G358500.1 127 FCKTLTASDTSTHGGFSVPRRAAEKVfppldfsQHPPAQ--ELIARDLHDNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI- 214
                         99*****************************86555555..8************************************************. PP

                         -SSSEE..EEEEE-S CS
                  B3  85 dgrsefelvvkvfrk 99 
                          ++++ +l+++++r+
  Potri.001G358500.1 215 -WNEKNQLLLGIRRA 228
                         .8899999****997 PP
2Auxin_resp118.45.8e-39253336183
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                         aahaa+t+s F+++YnPras+seFv++++k++ka++ ++vsvGmRf+m+fete+ss rr++Gt++g+sdld vrWpnS+Wrs+k
  Potri.001G358500.1 253 AAHAAATNSRFTIFYNPRASPSEFVIPLAKYLKAVYyTRVSVGMRFRMMFETEESSVRRYMGTITGISDLDVVRWPNSQWRSVK 336
                         79*********************************989*******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.7E-48112256IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.106.5E-42119242IPR015300DNA-binding pseudobarrel domain
CDDcd100171.07E-21126227No hitNo description
PROSITE profilePS5086312.464127229IPR003340B3 DNA binding domain
PfamPF023626.4E-22127228IPR003340B3 DNA binding domain
SMARTSM010196.4E-24127229IPR003340B3 DNA binding domain
PfamPF065073.3E-34253336IPR010525Auxin response factor
SuperFamilySSF542779.81E-7754838No hitNo description
PfamPF023091.4E-7755852IPR033389AUX/IAA domain
PROSITE profilePS5174521.927763848IPR000270PB1 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: 897 aa     Download sequence    Send to blast
MRHSSAGFNP QTHEVEKRVL NSELWHACAG PLVSLPAVGS RAVYFPQGHS EQVAASTNKE  60
VNAQIPSYPS LPAQLICQLH NVTMHADVET DEVYAQMTLQ PLSPQEQKAA YLPADMGTPS  120
KQPTNYFCKT LTASDTSTHG GFSVPRRAAE KVFPPLDFSQ HPPAQELIAR DLHDNEWKFR  180
HIFRGQPKRH LLTTGWSVFV SAKRLVAGDS VLFIWNEKNQ LLLGIRRATR PQTVMPSSVL  240
SSDSMHLGLL AAAAHAAATN SRFTIFYNPR ASPSEFVIPL AKYLKAVYYT RVSVGMRFRM  300
MFETEESSVR RYMGTITGIS DLDVVRWPNS QWRSVKVGWD ESTDGERQPR VSLWEIEPLT  360
TFPTYPSPFP LRLKRPWPPG LPSFHGIKDD DLGKNPSLMW LRGDGDCGYQ SLNFQGTGVS  420
PWVQPRVDAS MLGLQNDVYQ TMATAAFQEM RTLDPSKSSA ASFLQFQQHQ NLPTRSAALM  480
QPRMLQQSPP QQTFFQGVQE NKHQSQTPSQ SHLIQQQLLH HHLLDSPQQQ QQPFLQQQQL  540
ADQQIPNGVS AISQYASASQ SLTPPLQAIS LCQQHSYSDS NGNPATSPAV SSLQSLLDSF  600
PPNESSHLLS WPRINPLVTS SGWPSKRAAV ESLTSSGAPQ CMVTQVEQLG PLHTSITPSS  660
VSLPPFPGRE CSIDRDGGTD QQNHLLFGVN IEPSSLLLQN GMSSLRGVGS DSDSTTIPFS  720
SNYISTAGTN FSLNPAMTPS SCIDDSCFLQ STENASQGNP PTRTFVKVYK SGSFGRSLDI  780
TKFSSYNELR SELSRMFGLE GQLEDPLRSG WQLVFIDREN DVLLLGDGPW PEFVNSVWYI  840
KILSPQEVQQ MGKRGLELLN SFPIQRLSNG SCDDYANRQD SKSSSTGITS VGSLDY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1601635747388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pth.105180.0bud
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.001G358500.1
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_024441921.10.0auxin response factor 6 isoform X2
SwissprotA2X1A10.0ARFF_ORYSI; Auxin response factor 6
SwissprotQ6H6V40.0ARFF_ORYSJ; Auxin response factor 6
TrEMBLA0A2K2C9480.0A0A2K2C948_POPTR; Auxin response factor
STRINGPOPTR_0001s36900.10.0(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]