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 KN539151.1_FGP002
Organism
Oryza longistaminata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family ARF
Protein Properties Length: 362aa    MW: 39652.6 Da    PI: 6.6027
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KN539151.1_FGP002genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B358.31.4e-182653998
                       EETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE...E-SS.SEE..EEEEE- CS
                 B3 39 edesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk...ldgr.sefelvvkvfr 98
                        d++g+sWe+++iyr++++r++lt+GW++Fv+a++L +gD+vvF+         e++l+v+v+r
  KN539151.1_FGP002  2 GDLQGESWEFRHIYRGTPRRHLLTTGWSKFVNAKQLVAGDTVVFMwcgAGAPgPERKLLVGVRR 65
                       5899*****************************************4432222456677777776 PP
2Auxin_resp46.41.8e-1689164174
         Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkma.fetedsserrl.sGtvvgvsdldpvrW 74 
                        a++ a+++ +F+v+Y+Pr ++ eFvv++ +v k l++++  Gm+++ + +e ed ++  +  Gt + +++ +  r 
  KN539151.1_FGP002  89 AVRLAAEQAAFRVTYYPRHGAGEFVVPRVEVDKGLTTPWRCGMQVRAQvMEAEDTRRLAWlNGTLTNLRHQQIWRT 164
                        5778999***************************************9758***************99998666544 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5086312.703167IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.102.0E-18375IPR015300DNA-binding pseudobarrel domain
PfamPF023621.8E-15365IPR003340B3 DNA binding domain
CDDcd100173.10E-13365No hitNo description
SuperFamilySSF1019363.92E-15351IPR015300DNA-binding pseudobarrel domain
PfamPF065072.8E-1289169IPR010525Auxin response factor
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009725Biological Processresponse to hormone
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 362 aa     Download sequence    Send to blast
MGDLQGESWE FRHIYRGTPR RHLLTTGWSK FVNAKQLVAG DTVVFMWCGA GAPGPERKLL  60
VGVRRAARYS GESACNARGR VQPQEVMEAV RLAAEQAAFR VTYYPRHGAG EFVVPRVEVD  120
KGLTTPWRCG MQVRAQVMEA EDTRRLAWLN GTLTNLRHQQ IWRTLEVEWD ASAASSSMKN  180
RFVNPWQVQP VDFPPLPMGL KISNNNISAP VCNGDSLLVP PILMHPQPQP PADIQGARHN  240
NGHAYVDIPS SSTPSMVRTQ QLFPRDLQIL VPHTDIVTPQ NGSPPDNPVN TPLSASDGMK  300
TIQLFGVTIT SPVQGDTNGA FASAQVNQVP EGVDDETATE EASDTSLPDS LTNGHNQDGA  360
RL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A3e-253192168356Auxin response factor 1
4ldy_B3e-253192168356Auxin response factor 1
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).
Cis-element ? help Back to Top
SourceLink
PlantRegMapKN539151.1_FGP002
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1094490.0AK109449.1 Oryza sativa Japonica Group cDNA clone:001-113-A09, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015634416.10.0auxin response factor 13
SwissprotQ7XSS90.0ARFM_ORYSJ; Auxin response factor 13
TrEMBLA0A0E0PG540.0A0A0E0PG54_ORYRU; Auxin response factor
STRINGORUFI04G32360.10.0(Oryza rufipogon)
STRINGOS04T0690600-010.0(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP113553137
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G30080.12e-40auxin 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]