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 OMERI04G24170.1
Organism
Oryza meridionalis
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: 778aa    MW: 86302.1 Da    PI: 6.9631
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OMERI04G24170.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B368.21.2e-21143233186
                      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 +++
  OMERI04G24170.1 143 FCKNLTASDTSTHGGFSVPRRAAEKLfpqldySMQPPN-QELIVRDLHDNMWTFRHIYRGQPKRHLLTTGWSLFVGAKRLKAGDSVLFIRTS 233
                      89*********************999*****9555555.49***********************************************9544 PP
2Auxin_resp89.37.1e-302312961883
       Auxin_resp  18 rastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                      r+s+s Fv++v++++ka++++ svGmRf m+fete+ss+rr++Gtvvg+sd+dp+rWpnSkWr+L+
  OMERI04G24170.1 231 RTSPSPFVIPVARYNKATYMQPSVGMRFAMMFETEESSKRRYTGTVVGISDYDPMRWPNSKWRNLQ 296
                      799*************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.92E-40133238IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.5E-34136237IPR015300DNA-binding pseudobarrel domain
CDDcd100172.33E-19142229No hitNo description
PROSITE profilePS5086312.182143245IPR003340B3 DNA binding domain
PfamPF023622.1E-19143234IPR003340B3 DNA binding domain
SMARTSM010194.2E-18143247IPR003340B3 DNA binding domain
PfamPF065074.9E-25231296IPR010525Auxin response factor
PfamPF023093.1E-10664762IPR033389AUX/IAA domain
SuperFamilySSF542775.62E-9672754No hitNo description
PROSITE profilePS5174525.501675759IPR000270PB1 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: 778 aa     Download sequence    Send to blast
MASSQEKAKT GVLRNAAALL DEMQLMGETQ GAKKVINSEL WHACAGPLVC LPQRGSLVYY  60
FPQGHSEQVA ATTRKIPNSR IPNYPNLPSQ LLCQVHNITL HADKETDEVY AQMTLQPVNS  120
ETDVFPIPTL GAYTKSKHPT EYFCKNLTAS DTSTHGGFSV PRRAAEKLFP QLDYSMQPPN  180
QELIVRDLHD NMWTFRHIYR GQPKRHLLTT GWSLFVGAKR LKAGDSVLFI RTSPSPFVIP  240
VARYNKATYM QPSVGMRFAM MFETEESSKR RYTGTVVGIS DYDPMRWPNS KWRNLQVEWD  300
EHGYGERPER VSIWDIETPE NTLVFPSSAL NSKRQCLPGY GVSVPGMEIG SANMSSFPRA  360
QGNPYGSLQH IPAVGSELAI MLLNQSGQTL GSPLSFHQSS YSSIIQNVKQ NFIPPLTVST  420
SACLTKQESM PSGDAQHQFH MANMQNGDLE GSEVQPVIDS ISESKLNATS RDPRNTDSYT  480
SRSTSEQNSK GEPRGKTRRS KKGLPHKTVS EKSDLSSAPS WICDNQQVGL ESKLVGCDEQ  540
VNCGNIEDSS GALTQGNFDG QPHGHQVEQK GVLSPPKVES SKSPDGGKSV NSFPNQGCFS  600
QFIDGLDWMT QPSYYQDSNV IQPAGMYSKL PRLKESQILS LPEIHTNSMG TSACSMDATE  660
YSLDRSAKPM KPPVRTYTKV QKQGSVGRSI DVTGFRNYHE LRSAIACMFG LQGKLEHPGS  720
SEWKLVYVDY ENDVLLVGDD PWEEFINCVR CIRILSPSEV QQMSENGMHV LNDCIQAA
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-16013215392Auxin 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).
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.
GenBankAK1031050.0AK103105.1 Oryza sativa Japonica Group cDNA clone:J033118O21, full insert sequence.
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
TrEMBLA0A0E0DJP80.0A0A0E0DJP8_9ORYZ; Auxin response factor
STRINGORUFI04G30260.10.0(Oryza rufipogon)
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
AT1G19850.11e-165ARF 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]