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 evm_27.model.AmTr_v1.0_scaffold00029.187
Common NameAMTR_s00029p00157690, arf8, LOC18437712
Organism
Amborella trichopoda
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella
Family ARF
Protein Properties Length: 839aa    MW: 93205.7 Da    PI: 6.6985
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00029.187genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.72.3e-23127228199
                                               EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE- CS
                                        B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvlt 62 
                                               f+k+lt sd++++g +++p++ ae+        ++++++  +l+ +d++  +W++++i+r++++r++lt
  evm_27.model.AmTr_v1.0_scaffold00029.187 127 FCKTLTASDTSTHGGFSVPRRAAEKVfppldftQQPPAQ--ELIARDLHDVEWKFRHIFRGQPKRHLLT 193
                                               99*****************************86555544..8*************************** PP

                                               TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS
                                        B3  63 kGWkeFvkangLkegDfvvFkldgrsefelvvkvfrk 99 
                                               +GW+ Fv+a++L +gD+v+F   ++++ +l+++++r+
  evm_27.model.AmTr_v1.0_scaffold00029.187 194 TGWSVFVSAKRLVAGDSVIFI--WNDKNQLLLGIRRA 228
                                               *********************..7888889***9997 PP
2Auxin_resp112.93.1e-37253336183
                                Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsd 68 
                                               aahaa+t+s F+++YnPras+seFv++++k+ ka++ +++svGmRf+m fete+s  rr++Gt++g  d
  evm_27.model.AmTr_v1.0_scaffold00029.187 253 AAHAAATNSRFTIFYNPRASPSEFVIPFAKFAKAVYhTRISVGMRFRMLFETEESGVRRYMGTITGKCD 321
                                               79*********************************9789****************************** PP

                                Auxin_resp  69 ldpvrWpnSkWrsLk 83 
                                               ldpvrW+nS+Wrs+k
  evm_27.model.AmTr_v1.0_scaffold00029.187 322 LDPVRWSNSHWRSVK 336
                                               ************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019367.46E-49113256IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.2E-41121242IPR015300DNA-binding pseudobarrel domain
CDDcd100171.62E-21126227No hitNo description
SMARTSM010191.4E-23127229IPR003340B3 DNA binding domain
PROSITE profilePS5086312.308127229IPR003340B3 DNA binding domain
PfamPF023622.3E-21127228IPR003340B3 DNA binding domain
PfamPF065072.6E-32253336IPR010525Auxin response factor
SuperFamilySSF542771.9E-6701782No hitNo description
PfamPF023091.5E-6704792IPR033389AUX/IAA domain
PROSITE profilePS5174519.944708793IPR000270PB1 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:0009908Biological Processflower development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 839 aa     Download sequence    Send to blast
MKLSSSGSNP RGLEGEKRCL NSELWHACAG PLVSLPAVGS RVVYLPQGHS EQVAASTNKE  60
IDAHIPNYPS LPPQLICQLH DVTMHADVET DEVYAQMTLQ PLTQQEQKDA YVPTVLGFPS  120
KQPTNYFCKT LTASDTSTHG GFSVPRRAAE KVFPPLDFTQ QPPAQELIAR DLHDVEWKFR  180
HIFRGQPKRH LLTTGWSVFV SAKRLVAGDS VIFIWNDKNQ LLLGIRRATR PQTVMPSSVL  240
SSDSMHIGLL AAAAHAAATN SRFTIFYNPR ASPSEFVIPF AKFAKAVYHT RISVGMRFRM  300
LFETEESGVR RYMGTITGKC DLDPVRWSNS HWRSVKVGWD ESTAGERQPR VSLWDIEPLT  360
TFPMYPSPFA LRLKRPWQPG LPSLYDDKDD EGNPVMWLRG DNGERIPALQ SPSCQNLGIG  420
NPWMQPRPDL SLQGMESNFY QALAASALQE IRSGDLVKAP FLQFQQQFNA QPQYQCFSNP  480
LLQRQFLQQS NSQKSVTHQN PTVNENMNQT HLLQSQLNHS FGNPIHHEQF HVPNATTALS  540
QLAISNSCSL SQPTTHGRPS AFADSNPSLS SFQTADSNPS LSSLRSVMGP FYSDENATLL  600
NMEKTSQGMI HPQQVSFHTH TPQSMVEHEN GTSDTQGPLL FGVNIDSSSL ILPNSDSTLR  660
LRTMEGSADS GLLQFSAQGF QAASIGAFGC PNDSGLLHNM EQRKPHNPIL VKIYKTGCVG  720
RTLDISQFSS YEELRGKVAD MFGLEGQLDD PLRSGWQLVF VDRENDALLL GDGPWEAFVN  780
NVWYIKILSP HDIQMMGTNG VDQLHRQSNG NHRDYTTSHD HESLNPSTGV TSVGTLDY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-155135737388Auxin 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).
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).
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00033PBMTransfer from AT5G37020Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankFN4331710.0FN433171.1 Amborella trichopoda mRNA for putative auxin response factor 8 (arf8 gene).
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001292756.10.0auxin response factor 6
RefseqXP_020524898.10.0auxin response factor 6 isoform X1
SwissprotA2X1A10.0ARFF_ORYSI; Auxin response factor 6
SwissprotQ6H6V40.0ARFF_ORYSJ; Auxin response factor 6
TrEMBLE0WD850.0E0WD85_AMBTC; Auxin response factor
STRINGERN095560.0(Amborella trichopoda)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP8561456
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. 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. Finet C,Berne-Dedieu A,Scutt CP,Marl
    Evolution of the ARF gene family in land plants: old domains, new tricks.
    Mol. Biol. Evol., 2013. 30(1): p. 45-56
    [PMID:22977118]
  3. Amborella Genome Project
    The Amborella genome and the evolution of flowering plants.
    Science, 2013. 342(6165): p. 1241089
    [PMID:24357323]