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 OMERI01G08660.2
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: 714aa    MW: 78696.7 Da    PI: 5.6407
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OMERI01G08660.2genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B369.64.3e-22136236198
                      EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 
                      f+k+ltpsd++++g +++ +++a+e+       +     +++l+ +d++g +W++k+iyr++++r++lt+GW+ Fv +++L +gD +v    ++
  OMERI01G08660.2 136 FCKILTPSDTSTHGGFSVLRRHANEClppldmsMAT--PTQELITKDLHGSEWRFKHIYRGQPRRHLLTTGWSTFVTSKKLISGDAFVYL--RS 225
                      99****************************974333..3458999******************************************999..44 PP

                      SEE..EEEEE- CS
               B3  88 sefelvvkvfr 98 
                      +++e +v+v+r
  OMERI01G08660.2 226 ETGEQRVGVRR 236
                      77778999997 PP
2Auxin_resp96.93e-32262343183
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                      a+ha++t+s+F v+Y+Pr s+s+++v+v+k+++a kv + vGmRfkm+fe+ed++ +++sGt+vg  d  +++W++S+W+sLk
  OMERI01G08660.2 262 ASHAIKTNSIFLVYYRPRLSQSQYIVSVNKYLAASKVGFNVGMRFKMSFEGEDVPVKKFSGTIVGEGD-LSLQWSGSEWKSLK 343
                      789*****************************************************************.566*********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.97E-37127265IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.8E-36128251IPR015300DNA-binding pseudobarrel domain
CDDcd100172.74E-16134236No hitNo description
PfamPF023621.0E-19136236IPR003340B3 DNA binding domain
PROSITE profilePS5086311.138136238IPR003340B3 DNA binding domain
SMARTSM010191.1E-16136238IPR003340B3 DNA binding domain
PfamPF065077.4E-29262343IPR010525Auxin response factor
PfamPF023097.0E-7598646IPR033389AUX/IAA domain
SuperFamilySSF542772.8E-9606683No hitNo description
PROSITE profilePS5174525.447610699IPR000270PB1 domain
Gene3DG3DSA:3.10.20.2401.6E-4612675No hitNo description
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: 714 aa     Download sequence    Send to blast
MSSQGGGGGL MVGGGAHAGA GGGVGDPELF AELWRACAGP LVEVPQRDER VFYFLQGHLE  60
QLQEPTDPAL LAEQIKMFQV PYKILCKVVN VELKAETETD EVFAQITLQP DPDQENLPTL  120
PDPPLPEQPR PVVHSFCKIL TPSDTSTHGG FSVLRRHANE CLPPLDMSMA TPTQELITKD  180
LHGSEWRFKH IYRGQPRRHL LTTGWSTFVT SKKLISGDAF VYLRSETGEQ RVGVRRLVQK  240
QSTMPASVIS SQSMHLGVLA SASHAIKTNS IFLVYYRPRL SQSQYIVSVN KYLAASKVGF  300
NVGMRFKMSF EGEDVPVKKF SGTIVGEGDL SLQWSGSEWK SLKVQWDEVT NVNGPERVSP  360
WEIETCDGTA PAINVPLQSA TKNKRPREPS ETIDLQSLEP AQEFWLSGMP QQHEKTGIGS  420
SEPNCISGHQ VVWPGEHPGY GAVSSSSVCQ NPLVLESWLK DFNSSNKGVS PTLSEISQKI  480
FQVTSNEARI ATWPARSAYQ AEEPTSKLSS NTAACGYRTE EVAPNASKVV EGKKEPAMFR  540
LFGVDLMKCT SISTTTDDKS SVGAGEASAK GTGSHEDSGQ LSAFSKVTKE HIAADESPRE  600
IQSHQNYTAR TRIKVQMHGN AVGRAVDLAN LDGYEQLMNE LEEMFNIKDL KQKWKVAFTD  660
DEGDTMEVGD DPWLEFCQMV RKIVLYPIED EKKIEPHPKL LSSANPEQDQ KTGF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-152113641353Auxin response factor 1
4ldw_A1e-152113641353Auxin response factor 1
4ldw_B1e-152113641353Auxin response factor 1
4ldx_A1e-152113641353Auxin response factor 1
4ldx_B1e-152113641353Auxin 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. {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
GenBankAK1025210.0AK102521.1 Oryza sativa Japonica Group cDNA clone:J033095P08, full insert sequence.
GenBankEU8470080.0EU847008.1 Oryza sativa Japonica Group clone KCS385B05 auxin response factor mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015622434.10.0auxin response factor 1
SwissprotQ5NB850.0ARFA_ORYSJ; Auxin response factor 1
TrEMBLA0A0E0BZN60.0A0A0E0BZN6_9ORYZ; Auxin response factor
STRINGOMERI01G08660.10.0(Oryza meridionalis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP108236116
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G59750.30.0auxin response factor 1
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]