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 KN539122.1_FGP014
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: 582aa    MW: 64310.3 Da    PI: 8.3523
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KN539122.1_FGP014genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B378.47.7e-255106199
                        EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS
                 B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 
                        f+k+lt sd++++g +++p++ ae++      + +++ s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv+ ++L +gD v+F   +
  KN539122.1_FGP014   5 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyS-QQRPSQELVAKDLHGTEWRFRHIYRGQPRRHLLTTGWSAFVNKKKLVSGDAVLFL--R 93 
                        99****************************963.3445679************************************************..3 PP

                        SSEE..EEEEE-S CS
                 B3  87 rsefelvvkvfrk 99 
                         +++el+++v+r+
  KN539122.1_FGP014  94 GDDGELRLGVRRA 106
                        489999***9996 PP
2Auxin_resp110.41.8e-36131211182
         Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                        +aha++t+svF+++YnPr s+seF+v+++k++k+l++++svG Rfkm++e+ed+ err++G+++g  d++p  W++SkW++L
  KN539122.1_FGP014 131 VAHAVATESVFNIYYNPRLSQSEFIVPYWKFMKSLSQPFSVGLRFKMRYESEDATERRYTGIITGSGDTEP-MWHGSKWKCL 211
                        79*********************************************************************.9********9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.0E-402108IPR015300DNA-binding pseudobarrel domain
CDDcd100173.08E-233105No hitNo description
SuperFamilySSF1019366.15E-433120IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086313.4935107IPR003340B3 DNA binding domain
PfamPF023629.6E-235106IPR003340B3 DNA binding domain
SMARTSM010195.3E-235107IPR003340B3 DNA binding domain
PfamPF065075.2E-31131211IPR010525Auxin 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: 582 aa     Download sequence    Send to blast
MPHMFCKTLT ASDTSTHGGF SVPRRAAEDC FPPLDYSQQR PSQELVAKDL HGTEWRFRHI  60
YRGQPRRHLL TTGWSAFVNK KKLVSGDAVL FLRGDDGELR LGVRRAAQLK NGSAFPALYN  120
QCSNLGTLAN VAHAVATESV FNIYYNPRLS QSEFIVPYWK FMKSLSQPFS VGLRFKMRYE  180
SEDATERRYT GIITGSGDTE PMWHGSKWKC LLVRWDDDAE FRRPNRVSPW EIELTSSVSG  240
SHLSTPHSKR LKPCLPHVNP EYMVPRGGGC PDFAESAQFH KVLQGQELLG FKSHGGTAAA  300
TSQPCEARHL QYIDERSCSS DASNSILGVP RLGDRAPLGN PGFSYHCSGF GESPRLQKVL  360
QGQELFRPYR GTLVDASMGS NGFHQQDSPR APGMVNKWQA QLHGRAAFHG PPAPALPSQS  420
SSPPSVLMFQ QANSKMPRLE FGHGQLDKHE NDRRVRFGPS EGIERREQRV PLQPYPTSGE  480
VIDGQVTVEK SHSPGRHGKD GPDNKAVGTN SCKIFGISLT EKVPAREELD DGDANYSLQS  540
LKQVPKSLGN SCATMVAEYQ GDGGTDDSDI FILDVGVGAL IM
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A8e-923241122361Auxin response factor 1
4ldw_A8e-923241122361Auxin response factor 1
4ldw_B8e-923241122361Auxin response factor 1
4ldx_A9e-923241122361Auxin response factor 1
4ldx_B9e-923241122361Auxin 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
PlantRegMapKN539122.1_FGP014
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0712900.0AB071290.1 Oryza sativa OsETTIN1 mRNA for Arabidopsis ETTIN-like protein 1, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025881421.10.0auxin response factor 15 isoform X1
SwissprotQ8S9850.0ARFO_ORYSJ; Auxin response factor 15
TrEMBLA0A0D3GAT50.0A0A0D3GAT5_9ORYZ; Auxin response factor
STRINGOBART05G25790.20.0(Oryza barthii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP25373580
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33860.11e-126ARF 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. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]
  3. Khanday I,Yadav SR,Vijayraghavan U
    Rice LHS1/OsMADS1 controls floret meristem specification by coordinated regulation of transcription factors and hormone signaling pathways.
    Plant Physiol., 2013. 161(4): p. 1970-83
    [PMID:23449645]