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 ORGLA04G0254900.1
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: 831aa    MW: 92409.8 Da    PI: 6.512
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORGLA04G0254900.1genomeAGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B371.41.1e-22146247199
                        EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                 B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                        f+k+lt sd++++g +++p++ ae+        ++++++  +l+ +d +  +W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F   
  ORGLA04G0254900.1 146 FCKTLTASDTSTHGGFSVPRRAAERVfppldftQQPPAQ--ELIARDIHDIEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI-- 233
                        99***********************9*****86555544..8************************************************.. PP

                        SSSEE..EEEEE-S CS
                 B3  86 grsefelvvkvfrk 99 
                        ++++ +l+++++r+
  ORGLA04G0254900.1 234 WNEKNQLLLGIRRA 247
                        8899999****997 PP
2Auxin_resp112.63.8e-37272355183
         Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                        aahaa+t+s F+++YnPras+seFv++++k+ ka+  +++svGmRf+m fete+ss rr++Gt++ vsd+dpvrWp S Wrs+k
  ORGLA04G0254900.1 272 AAHAAATNSRFTIFYNPRASPSEFVIPLSKYIKAVFhTRISVGMRFRMLFETEESSVRRYMGTITEVSDADPVRWPSSYWRSVK 355
                        79*******************************986599******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019367.98E-48131275IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.7E-41138261IPR015300DNA-binding pseudobarrel domain
CDDcd100175.51E-21145246No hitNo description
PfamPF023627.8E-21146247IPR003340B3 DNA binding domain
SMARTSM010191.4E-23146248IPR003340B3 DNA binding domain
PROSITE profilePS5086312.224146248IPR003340B3 DNA binding domain
PfamPF065071.6E-32272355IPR010525Auxin response factor
PfamPF023091.6E-7725816IPR033389AUX/IAA domain
SuperFamilySSF542771.96E-7728807No hitNo description
PROSITE profilePS5174524.037732816IPR000270PB1 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: 831 aa     Download sequence    Send to blast
MSSSSAASIG PPQPPPPPAP PEEGGWLEKK CLNSELWHAC AGPLVCLPTV GTRVVYFPQG  60
HSEQVRLAYV KVAASTNKEV EGHIPNYPNL PAQLICQLHD VTMHADVETD EVYAQMTLQP  120
LNPQEQNDAY LPAEMGIMSK QPTNYFCKTL TASDTSTHGG FSVPRRAAER VFPPLDFTQQ  180
PPAQELIARD IHDIEWKFRH IFRGQPKRHL LTTGWSVFVS AKRLVAGDSV LFIWNEKNQL  240
LLGIRRASRP QTVMPSSVLS SDSMHIGLLA AAAHAAATNS RFTIFYNPRA SPSEFVIPLS  300
KYIKAVFHTR ISVGMRFRML FETEESSVRR YMGTITEVSD ADPVRWPSSY WRSVKVGWDE  360
STAGERPPRV SLWEIEPLTT FPMYPSLFPL RVKHPWYSGV ASLHDDSNAL MWLRGVAGEG  420
GFQSLNFQSP GIGSWGQQRL HPSLLSSDHD QYQAVVAAAA ASHSGGYLKQ QFLHLQQPMQ  480
SPQEHCNLNP LLQQQILQQA SQQQIINPDA QNIQTMLSPS AIQQQLQQLQ QMQQVQNDQK  540
QKIQPDQSYQ VPTSAVLPSP TSLPSHLREK FGFSDPNANS SSFITSSSSD NMLDSSFLQG  600
SSKAVDLSRF NQPVASEQQQ QQQQQQAWKQ KFMGSQSVSF GGSVLHNSPT SKDGSVENKI  660
GRDVQNQSLF SPQVDSSSLL YNMVPNLTSN VSDGNLSTIP SGSTYLQNAM YGCLDDSSGL  720
LQNTGENDPA TRTFVKVYKS GSVGRSLDIT RFSNYAELRE ELGQMFGIKG QLDDPDRSGW  780
QLVFVDREND VLLLGDDPWE SFVNSVWYIK ILSPEDVHKM GKQGNDPRYL S
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1592837647388Auxin 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).
Cis-element ? help Back to Top
SourceLink
PlantRegMapORGLA04G0254900.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0712980.0AB071298.1 Oryza sativa OsARF8 mRNA for auxin response factor 8, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015636872.10.0auxin response factor 12 isoform X1
SwissprotQ0J9510.0ARFL_ORYSJ; Auxin response factor 12
TrEMBLI1PQT00.0I1PQT0_ORYGL; Auxin response factor
STRINGORGLA04G0254900.10.0(Oryza glaberrima)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP58503039
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. Qi Y, et al.
    OsARF12, a transcription activator on auxin response gene, regulates root elongation and affects iron accumulation in rice (Oryza sativa).
    New Phytol., 2012. 193(1): p. 109-20
    [PMID:21973088]
  3. Shen WJ,Ruan XL,Li XS,Zhao Q,Li HP
    RNA silencing suppressor Pns11 of rice gall dwarf virus induces virus-like symptoms in transgenic rice.
    Arch. Virol., 2012. 157(8): p. 1531-9
    [PMID:22592958]
  4. Wang S, et al.
    Auxin response factor (OsARF12), a novel regulator for phosphate homeostasis in rice (Oryza sativa).
    New Phytol., 2014. 201(1): p. 91-103
    [PMID:24111723]
  5. Fan J, et al.
    Infection of Ustilaginoidea virens intercepts rice seed formation but activates grain-filling-related genes.
    J Integr Plant Biol, 2015. 57(6): p. 577-90
    [PMID:25319482]