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 KN538824.1_FGP009
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: 603aa    MW: 66744.4 Da    PI: 8.0324
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KN538824.1_FGP009genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B378.95.4e-2563164199
                        EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                 B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                        f+k+lt sd++++g +++p++ ae++       ++    s++l+ +d++g +W++++iyr++++r++lt+GW++Fv+ ++L +gD v+F   
  KN538824.1_FGP009  63 FCKTLTASDTSTHGGFSVPRRAAEDCfppldhkQLR--PSQELVAKDLHGAKWRFRHIYRGQPRRHLLTTGWSSFVNKKKLVSGDAVLFL-- 150
                        99**************************99865444..4669************************************************.. PP

                        SSSEE..EEEEE-S CS
                 B3  86 grsefelvvkvfrk 99 
                        + +++el+++v+r+
  KN538824.1_FGP009 151 RGDDGELRLGVRRA 164
                        3489999****997 PP
2Auxin_resp112.83.2e-37189269182
         Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                        +a++++++ vF+++YnPra++se+vv+++k++k+++++v++GmRfk++fe+ed++err sG+++gvs++dp+rWp+SkWrsL
  KN538824.1_FGP009 189 VADSLKHGGVFHICYNPRATASEYVVPYWKFVKSFNHPVCIGMRFKFHFESEDVNERR-SGMIAGVSEVDPIRWPGSKWRSL 269
                        57789999**************************************************.9********************99 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.19E-4747202IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.5E-3958166IPR015300DNA-binding pseudobarrel domain
CDDcd100176.66E-2361163No hitNo description
PfamPF023625.2E-2363164IPR003340B3 DNA binding domain
PROSITE profilePS5086313.50763165IPR003340B3 DNA binding domain
SMARTSM010192.8E-2463165IPR003340B3 DNA binding domain
PfamPF065071.4E-30190269IPR010525Auxin 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: 603 aa     Download sequence    Send to blast
MVGCIYMLDF VQADAATDEV YARLALVAVG EVFERNLHGG GIEREDDMED GDEERKSRML  60
HMFCKTLTAS DTSTHGGFSV PRRAAEDCFP PLDHKQLRPS QELVAKDLHG AKWRFRHIYR  120
GQPRRHLLTT GWSSFVNKKK LVSGDAVLFL RGDDGELRLG VRRATQLKNE AIFKAFSSES  180
SKMRTLSAVA DSLKHGGVFH ICYNPRATAS EYVVPYWKFV KSFNHPVCIG MRFKFHFESE  240
DVNERRSGMI AGVSEVDPIR WPGSKWRSLL VRWEDATDCN SQNRVSPWEI EIVGGSISVA  300
HSLSASSSKR TKLCPQGNLD VPALYGNGRP DSVETEKFPR VLQGQELMGS RTHRVTCSPQ  360
SIDITKSKSF DAWRFLTDTR SCMLGSSTSR LPVQYSGYTH QSVSFGESIG FPEVLQGQEI  420
SQTVPPFQGM LPDACSAKSR YELKNYVCTP ATMNGLSSAN EGYCLSLSTV PPSAPSSLML  480
YQTGVPQLEL ASKNNDKSGN DSQPALRQHK LLSETSWDQF KIGKASTPGN ATKPGNGGRE  540
VDRTSCRLFG FSLTEKIIPT NKDGEKEGSY ETDCQNPRML DLFGYNCSTP GALHALCAAP  600
LGI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A6e-791229183353Auxin response factor 1
4ldy_B6e-791229183353Auxin 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
PlantRegMapKN538824.1_FGP009
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0723300.0AK072330.1 Oryza sativa Japonica Group cDNA clone:J023039P13, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015634503.10.0auxin response factor 3 isoform X2
SwissprotQ5JMM10.0ARFC_ORYSJ; Auxin response factor 3
TrEMBLA0A0D9YF290.0A0A0D9YF29_9ORYZ; Auxin response factor
STRINGOS01T0753500-010.0(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP51132756
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33860.11e-125ARF family protein
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. Song X, et al.
    Rice RNA-dependent RNA polymerase 6 acts in small RNA biogenesis and spikelet development.
    Plant J., 2012. 71(3): p. 378-89
    [PMID:22443269]