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 OMERI01G08660.1
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: 654aa    MW: 72720.2 Da    PI: 5.5286
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OMERI01G08660.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B369.73.8e-22122222198
                      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    ++
  OMERI01G08660.1 122 FCKILTPSDTSTHGGFSVLRRHANEClppldmsMAT--PTQELITKDLHGSEWRFKHIYRGQPRRHLLTTGWSTFVTSKKLISGDAFVYL--RS 211
                      99****************************974333..3458999******************************************999..44 PP

                      SEE..EEEEE- CS
               B3  88 sefelvvkvfr 98 
                      +++e +v+v+r
  OMERI01G08660.1 212 ETGEQRVGVRR 222
                      77778999997 PP
2Auxin_resp972.7e-32248329183
       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
  OMERI01G08660.1 248 ASHAIKTNSIFLVYYRPRLSQSQYIVSVNKYLAASKVGFNVGMRFKMSFEGEDVPVKKFSGTIVGEGD-LSLQWSGSEWKSLK 329
                      789*****************************************************************.566*********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.32E-37113251IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.1E-36114237IPR015300DNA-binding pseudobarrel domain
CDDcd100172.32E-16120222No hitNo description
SMARTSM010191.1E-16122224IPR003340B3 DNA binding domain
PROSITE profilePS5086311.138122224IPR003340B3 DNA binding domain
PfamPF023628.9E-20122222IPR003340B3 DNA binding domain
PfamPF065076.5E-29248329IPR010525Auxin response factor
PfamPF023096.3E-7538586IPR033389AUX/IAA domain
SuperFamilySSF542772.5E-9546623No hitNo description
PROSITE profilePS5174525.447550639IPR000270PB1 domain
Gene3DG3DSA:3.10.20.2401.4E-4552615No 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: 654 aa     Download sequence    Send to blast
MSSQGAGGGV GDPELFAELW RACAGPLVEV PQRDERVFYF LQGHLEQLQE PTDPALLAEQ  60
IKMFQVPYKI LCKVVNVELK AETETDEVFA QITLQPDPDQ ENLPTLPDPP LPEQPRPVVH  120
SFCKILTPSD TSTHGGFSVL RRHANECLPP LDMSMATPTQ ELITKDLHGS EWRFKHIYRG  180
QPRRHLLTTG WSTFVTSKKL ISGDAFVYLR SETGEQRVGV RRLVQKQSTM PASVISSQSM  240
HLGVLASASH AIKTNSIFLV YYRPRLSQSQ YIVSVNKYLA ASKVGFNVGM RFKMSFEGED  300
VPVKKFSGTI VGEGDLSLQW SGSEWKSLKV QWDEVTNVNG PERVSPWEIE TCDGTAPAIN  360
VPLQSATKNK RPREPSETID LQSLEPAQEF WLSGMPQQHE KTGIGSSEPN CISGHQVVWP  420
GEHPGYGAVS SSSVCQNPLV LESWLKDFNS SNKGVSPTLS EISQKIFQVV EGKKEPAMFR  480
LFGVDLMKCT SISTTTDDKS SVGAGEASAK GTGSHEDSGQ LSAFSKVTKE HIAADESPRE  540
IQSHQNYTAR TRIKVQMHGN AVGRAVDLAN LDGYEQLMNE LEEMFNIKDL KQKWKVAFTD  600
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-15233507353Auxin response factor 1
4ldw_A1e-15233507353Auxin response factor 1
4ldw_B1e-15233507353Auxin response factor 1
4ldx_A1e-15233507353Auxin response factor 1
4ldx_B1e-15233507353Auxin 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
TrEMBLA0A0E0BZN50.0A0A0E0BZN5_9ORYZ; Auxin response factor
STRINGOS01T0236300-010.0(Oryza sativa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G23980.10.0auxin response factor 9
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]