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 OBART11G15270.1
Organism
Oryza barthii
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: 858aa    MW: 94589.3 Da    PI: 6.9743
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OBART11G15270.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.71e-23148249199
                      EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                      f+k+lt sd++++g +++ +++a+e+      + + + +++l+ +d++g +W++++i+r++++r++l++GW+ Fv+a++L +gD ++F   + +
  OBART11G15270.1 148 FCKTLTASDTSTHGGFSVLRRHADEClppldmSRQ-PPTQELVAKDLHGVEWRFRHIFRGQPRRHLLQSGWSVFVSAKRLVAGDAFIFL--RGE 238
                      99*****************************7333.34459************************************************..449 PP

                      EE..EEEEE-S CS
               B3  89 efelvvkvfrk 99 
                      ++el+v+v+r+
  OBART11G15270.1 239 NGELRVGVRRA 249
                      999*****996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.103.6E-42141263IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.37E-40143277IPR015300DNA-binding pseudobarrel domain
CDDcd100177.35E-22146248No hitNo description
PfamPF023621.4E-21148249IPR003340B3 DNA binding domain
SMARTSM010199.9E-24148250IPR003340B3 DNA binding domain
PROSITE profilePS5086311.899148250IPR003340B3 DNA binding domain
PfamPF065071.2E-35274356IPR010525Auxin response factor
SuperFamilySSF542771.47E-9719793No hitNo description
PROSITE profilePS5174517.534724807IPR000270PB1 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:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 858 aa     Download sequence    Send to blast
MATAEVGGGG GEGDAAAAAV ARGGGGGGGG GGGEDALFTE LWSACAGPLV TVPRVGEKVF  60
YFPQGHIEQV EASTNQVGEQ RMQLYNLPWK ILCEVMNVEL KAEPDTDEVY AQLTLLPESK  120
QQEDNGSTEE EVPSAPAAGH VRPRVHSFCK TLTASDTSTH GGFSVLRRHA DECLPPLDMS  180
RQPPTQELVA KDLHGVEWRF RHIFRGQPRR HLLQSGWSVF VSAKRLVAGD AFIFLRGENG  240
ELRVGVRRAM RQQANVPSSV ISSHSMHLGV LATAWHAVNT GTMFTVYYKP RTSPAEFVVP  300
YDRYMESLKR NYSIGMRFKM RFEGEEAPEQ RFTGTIVGMG DSDPAGWPES KWRSLKVRWD  360
EASSIPRPER VSPWQIEPAV SPPPVNPLPV PRTKRLRPNA TALPADSSAI AKEAATKVVV  420
ESEPNGTQRT FQTQENATPK SGFGNSSELE SAQKSIMRPS GFDREKNNTP IQWKLGSDGR  480
MQMSKPESYS EMLSGFQPPK DVQTPQGFCS LPEQITAGHS NFWHTVNAQY QDQQSNHNMF  540
PSSWSFMPPN TRLGLNKQNY SMIQEAGVLS QRPGNTKFGN GVYAALPGRG TEQYSGGWFG  600
HMMPNSHMDD TQPRLIKPKP LVVAHGDVQK AKGASCKLFG IHLDSPAKSE PLKSPSSVVY  660
DGTPQTPGAT EWRRPDVTEV EKCSDPSKAM KPLDTPQPDS VPEKPSSQQA SRNMSCKSQG  720
VSTRSCKKVH KQGIALGRSV DLTKFKGYEE LIAELDDMFD FNGELKGPKK EWMVVYTDNE  780
GDMMLVGDDP WIQSFLNSEF CDMVHKIFIY TREEVQRMNP GTLNSRSEDS HANSMERGSV  840
GREMRGCLST SSLNSENC
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-176213783354Auxin response factor 1
4ldw_A1e-176213783354Auxin response factor 1
4ldw_B1e-176213783354Auxin response factor 1
4ldx_A1e-176213783354Auxin response factor 1
4ldx_B1e-176213783354Auxin 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).
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin under light or dark conditions and gravitropic stimulation of coleptile. {ECO:0000269|PubMed:12369618, ECO:0000269|PubMed:17408882}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF1402280.0AF140228.2 Oryza sativa (indica cultivar-group) putative auxin response factor 1 mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015617186.10.0auxin response factor 23 isoform X1
RefseqXP_015617187.10.0auxin response factor 23 isoform X1
RefseqXP_015617188.10.0auxin response factor 23 isoform X2
SwissprotQ2R3F50.0ARFW_ORYSJ; Auxin response factor 23
TrEMBLA0A0D3HME80.0A0A0D3HME8_9ORYZ; Auxin response factor
STRINGOBART11G15270.10.0(Oryza barthii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP117836111
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.30.0auxin response factor 2
Publications ? help Back to Top
  1. Contreras I,Ortiz-Zapater E,Castilho LM,Aniento F
    Characterization of Cop I coat proteins in plant cells.
    Biochem. Biophys. Res. Commun., 2000. 273(1): p. 176-82
    [PMID:10873582]
  2. Kobayashi-Uehara A,Shimosaka E,Handa H
    Cloning and expression analyses of cDNA encoding an ADP-ribosylation factor from wheat: tissue-specific expression of wheat ARF.
    Plant Sci., 2001. 160(3): p. 535-542
    [PMID:11166441]
  3. Ren H, et al.
    Combinative effects of a bacterial type-III effector and a biocontrol bacterium on rice growth and disease resistance.
    J. Biosci., 2006. 31(5): p. 617-27
    [PMID:17301500]
  4. Song Y,You J,Xiong L
    Characterization of OsIAA1 gene, a member of rice Aux/IAA family involved in auxin and brassinosteroid hormone responses and plant morphogenesis.
    Plant Mol. Biol., 2009. 70(3): p. 297-309
    [PMID:19266169]
  5. Kitajima A, et al.
    The rice alpha-amylase glycoprotein is targeted from the Golgi apparatus through the secretory pathway to the plastids.
    Plant Cell, 2009. 21(9): p. 2844-58
    [PMID:19767453]
  6. Kishimoto N, et al.
    Identification of the duplicated segments in rice chromosomes 1 and 5 by linkage analysis of cDNA markers of known functions.
    Theor. Appl. Genet., 1994. 88(6-7): p. 722-6
    [PMID:24186168]
  7. Sugano SS, et al.
    CRISPR/Cas9-mediated targeted mutagenesis in the liverwort Marchantia polymorpha L.
    Plant Cell Physiol., 2014. 55(3): p. 475-81
    [PMID:24443494]
  8. Kaneko K, et al.
    N-Glycomic and Microscopic Subcellular Localization Analyses of NPP1, 2 and 6 Strongly Indicate that trans-Golgi Compartments Participate in the Golgi to Plastid Traffic of Nucleotide Pyrophosphatase/Phosphodiesterases in Rice.
    Plant Cell Physiol., 2016. 57(8): p. 1610-28
    [PMID:27335351]