PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID ORGLA04G0248600.1
Organism
Oryza glaberrima
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: 955aa    MW: 105224 Da    PI: 6.3206
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORGLA04G0248600.1genomeAGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.84.2e-23143244199
                        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+       ++++++ ++l+++d++ + W++++iyr++++r++lt+GW+ Fv a++Lk+gD+v+F   +
  ORGLA04G0248600.1 143 FCKNLTASDTSTHGGFSVPRRAAEKLfpqldySMQPPN-QELIVRDLHDNMWTFRHIYRGQPKRHLLTTGWSLFVGAKRLKAGDSVLFI--R 231
                        89*********************999*****9555555.49************************************************..4 PP

                        SSEE..EEEEE-S CS
                 B3  87 rsefelvvkvfrk 99 
                        +++ +l+++v+r+
  ORGLA04G0248600.1 232 DEKSQLLLGVRRA 244
                        5677789999997 PP
2Auxin_resp117.51.1e-38269351183
         Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                        aahaas++s F+++YnPr+s+s Fv++v++++ka++++ svGmRf m+fete+ss+rr++Gtvvg+sd+dp+rWpnSkWr+L+
  ORGLA04G0248600.1 269 AAHAASSGSSFTIYYNPRTSPSPFVIPVARYNKATYMQPSVGMRFAMMFETEESSKRRYTGTVVGISDYDPMRWPNSKWRNLQ 351
                        79*******************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.4E-45133272IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.3E-40136257IPR015300DNA-binding pseudobarrel domain
CDDcd100172.66E-20142243No hitNo description
PfamPF023621.1E-20143244IPR003340B3 DNA binding domain
PROSITE profilePS5086312.689143245IPR003340B3 DNA binding domain
SMARTSM010191.3E-22143245IPR003340B3 DNA binding domain
PfamPF065074.8E-34269351IPR010525Auxin response factor
PfamPF023092.0E-10806939IPR033389AUX/IAA domain
SuperFamilySSF542777.19E-9849931No hitNo description
PROSITE profilePS5174525.501852936IPR000270PB1 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:0009942Biological Processlongitudinal axis specification
GO:0010305Biological Processleaf vascular tissue pattern formation
GO:0048364Biological Processroot development
GO:0048507Biological Processmeristem development
GO:0005634Cellular Componentnucleus
GO:0016020Cellular Componentmembrane
GO:0042802Molecular Functionidentical protein binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 955 aa     Download sequence    Send to blast
MASSQEKAKT GVLRNAAALL DEMQLMGETQ GAKKVINSEL WHACAGPLVC LPQRGSLVYY  60
FPQGHSEQVA ATTRKIPNSR IPNYPNLPSQ LLCQVHNITL HADKDTDEVY AQMTLQPVNS  120
ETDVFPIPTL GAYTKSKHPT EYFCKNLTAS DTSTHGGFSV PRRAAEKLFP QLDYSMQPPN  180
QELIVRDLHD NMWTFRHIYR GQPKRHLLTT GWSLFVGAKR LKAGDSVLFI RDEKSQLLLG  240
VRRATRQQTM LSSSVLSTDS MHIGVLAAAA HAASSGSSFT IYYNPRTSPS PFVIPVARYN  300
KATYMQPSVG MRFAMMFETE ESSKRRYTGT VVGISDYDPM RWPNSKWRNL QVEWDEHGYG  360
ERPERVSIWD IETPENTLVF PSSTLNSKRQ CLPGYGVSVP GMEIGSANMS SFPRAQGNPY  420
GSLQHIPAVG SELAIMLLNQ SGQTLGSPLS FHQSSYSSII QNVKQNYIPP LTVSTSACLT  480
KQESLPSDDA QHQFHMANMQ NGDLEGSEVQ PVIDSISESK LNATSRDPRN TDSYTSRSTS  540
EQNSKGEPRG KTRRSKKGLP HKTVSEKSDL SSAPSWICDN QQVGLESKLV GCDEQVNCGN  600
IEDSSGALTQ GNFVGQPHGH QVEQKGVLSP PKVESSKSPD GGKSVNSFPN QGCFSQFIDG  660
LDWMTQPSYY QDSNVIQPAG VSENIFSSSA DIPPSMIADT METFQASCLS DCLPNSIQEF  720
ISSPDLNSLT FLSPDMQNLE VQLQHDGSNL PSTSNSFVQM SFSEESASQS ANLSGLHMES  780
THRSINTTSC SQPMSTGGFD AGMYSKLPRL KESQILSLPE IHTNSMGTSA CSMDATEYSL  840
DRSAKPMKPP VRTYTKVQKQ GSVGRSIDVT GFRNYHELRS AIACMFGLQG KLEHPGSSEW  900
KLVYVDYEND VLLVGDDPWE EFINCVRCIR ILSPSEVQQM SENGMHVLND CIQAA
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A0.013745390Auxin 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
MP00153DAPTransfer from AT1G19850Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapORGLA04G0248600.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0712920.0AB071292.1 Oryza sativa OsMP mRNA for Arabidopsis Monopteros-like protein, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025881052.10.0auxin response factor 11-like isoform X1
SwissprotQ01K260.0ARFK_ORYSI; Auxin response factor 11
SwissprotQ8S9830.0ARFK_ORYSJ; Auxin response factor 11
TrEMBLI1PQL70.0I1PQL7_ORYGL; Auxin response factor
STRINGORGLA04G0248600.10.0(Oryza glaberrima)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP86733241
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G19850.10.0ARF family protein
Publications ? help Back to Top
  1. Shen C, et al.
    Functional analysis of the structural domain of ARF proteins in rice (Oryza sativa L.).
    J. Exp. Bot., 2010. 61(14): p. 3971-81
    [PMID:20693412]
  2. Indoliya Y, et al.
    Decoding regulatory landscape of somatic embryogenesis reveals differential regulatory networks between japonica and indica rice subspecies.
    Sci Rep, 2016. 6: p. 23050
    [PMID:26973288]