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_scaffold00092.36
Common NameAMTR_s00092p00072950
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: 987aa    MW: 109736 Da    PI: 6.7257
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00092.36genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.71.1e-23127228199
                                              EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-T CS
                                       B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltk 63 
                                              f+k+lt sd++++g +++p++ ae+        ++++++  +l+ +d++ ++W++++i+r++++r++lt+
  evm_27.model.AmTr_v1.0_scaffold00092.36 127 FCKTLTASDTSTHGGFSVPRRAAEKVfppldftQQPPAQ--ELIARDLHDNEWKFRHIFRGQPKRHLLTT 194
                                              99*****************************86555544..8**************************** PP

                                              THHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS
                                       B3  64 GWkeFvkangLkegDfvvFkldgrsefelvvkvfrk 99 
                                              GW+ Fv+a++L +gD+v+F   ++++ +l+++++r+
  evm_27.model.AmTr_v1.0_scaffold00092.36 195 GWSVFVSAKRLVAGDSVLFI--WNEKNQLLLGIRRA 228
                                              ********************..8899999****997 PP
2Auxin_resp121.56.4e-40253336183
                               Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdl 69 
                                              aahaa+t+s F+++YnPras+seFv++++k++ka++ ++vsvGmRf+m fete+ss rr++Gt++g+sdl
  evm_27.model.AmTr_v1.0_scaffold00092.36 253 AAHAAATNSRFTIFYNPRASPSEFVIPLAKYVKAVYhTRVSVGMRFRMLFETEESSVRRYMGTITGISDL 322
                                              79*********************************9789******************************* PP

                               Auxin_resp  70 dpvrWpnSkWrsLk 83 
                                              dpvrWpnS+Wrs+k
  evm_27.model.AmTr_v1.0_scaffold00092.36 323 DPVRWPNSHWRSVK 336
                                              ***********985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.01E-48112256IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.105.9E-42119242IPR015300DNA-binding pseudobarrel domain
CDDcd100171.27E-21126227No hitNo description
PfamPF023626.1E-22127228IPR003340B3 DNA binding domain
SMARTSM010192.3E-24127229IPR003340B3 DNA binding domain
PROSITE profilePS5086312.52127229IPR003340B3 DNA binding domain
PfamPF065078.9E-35253336IPR010525Auxin response factor
SuperFamilySSF542773.19E-6781855No hitNo description
PROSITE profilePS5174521.408781865IPR000270PB1 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: 987 aa     Download sequence    Send to blast
MKLSSSSFSH QSQEGEKRCL NSELWHACAG PLVSLPAVGS RVVYFPQGHS EQVAASTNKE  60
VDAHIPNYPS LPPQLICQLH NVTMHADVET DEVYAQMTLQ PLNPQEQKDA FLPADLGTSG  120
KQPTNYFCKT LTASDTSTHG GFSVPRRAAE KVFPPLDFTQ QPPAQELIAR DLHDNEWKFR  180
HIFRGQPKRH LLTTGWSVFV SAKRLVAGDS VLFIWNEKNQ LLLGIRRANR PQTVMPSSVL  240
SSDSMHIGLL AAAAHAAATN SRFTIFYNPR ASPSEFVIPL AKYVKAVYHT RVSVGMRFRM  300
LFETEESSVR RYMGTITGIS DLDPVRWPNS HWRSVKVGWD ESTAGERQPR VSLWEIEPLT  360
TFPMYPSPFP LRLKRPWPPG LPSLHGNKDD DLGMSAPLMW LRDGADRNMQ SLNFQGLGVS  420
PWMPQRFDSS LLGMQSDVYQ AMAAAALQEM RGGIDPSKQG AASLLQFQQP LQQTQQSLQS  480
RPNPMLQRQI MQQTQPPQSQ QTLLQAIQET QSPNHILSHQ LQHQHSFNDQ QQQNSQHNSQ  540
QNQQQLPDQQ QTQQQQFQIP NVVSALSQLA SSSQSPSLQS ISSSLCQQSS FSDSNGNPVT  600
TTSISPLQSI LGSFPPDESS HLNLPRTNSA TLPRDHMLPS APWLSKRISI DSSLPSGGPI  660
VLPHVEQLAT QPNMAQHPVS LLPFPGRECS VDQEGSVGDP QSHLLFGVNI DSSSLMMQNG  720
VSALRGLGGD TDPSAALSYA ASNFLGNPGT DFLNPGMAGS GCLNESGFLP SPENVGQINP  780
QNFVKVCKSG SFGRSLEITR FSSYLELRSE LARMFGLEGQ LEDPLRSGWQ LIYIDRDNDV  840
LLLGDDPWPD FVKNASCIKI LSPQELQQMG KQGIELLRTV PMQRQQSSIC DDYEKREEQF  900
VFYVFLCLLK AACALWVWPP TQPTPTTLRF CGFKPNPHRQ PIDFVDFNYI KVKDSSETEK  960
NSEPRPLSFL RLESYSDHAM AAPVRF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1621135741388Auxin 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).
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankFN4331700.0FN433170.1 Amborella trichopoda mRNA for putative auxin response factor 6 (arf6 gene).
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001292755.10.0ADP-ribosylation factor 6
SwissprotA2X1A10.0ARFF_ORYSI; Auxin response factor 6
SwissprotQ6H6V40.0ARFF_ORYSJ; Auxin response factor 6
TrEMBLW1NVC50.0W1NVC5_AMBTC; Auxin response factor
STRINGERM991800.0(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
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]
  2. Amborella Genome Project
    The Amborella genome and the evolution of flowering plants.
    Science, 2013. 342(6165): p. 1241089
    [PMID:24357323]