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 OMERI02G20310.1
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: 680aa    MW: 74922.2 Da    PI: 6.3001
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OMERI02G20310.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.42.7e-23130230198
                      EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 
                      f+k+lt sd++++g +++ +++aee+       ++++ +  +l+ +d++g++W +++i+r++++r++lt+GW+ Fv++++L +gD ++F   + 
  OMERI02G20310.1 130 FCKTLTASDTSTHGGFSVLRRHAEEClppldmtQNPPWQ--ELVARDLHGNEWHFRHIFRGQPRRHLLTTGWSVFVSSKRLVAGDAFIFL--RG 219
                      99****************************986555545..8************************************************..44 PP

                      SEE..EEEEE- CS
               B3  88 sefelvvkvfr 98 
                      +++el+v+v+r
  OMERI02G20310.1 220 ENGELRVGVRR 230
                      9999*****97 PP
2Auxin_resp111.49.1e-37256338183
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                      a+ha+st++ F+v+Y+Pr+s+seFvv+++k+++a ++k+svGmRfkm+fe+++++err+sGt++gv  ++++ W nS WrsLk
  OMERI02G20310.1 256 ASHAISTGTLFSVFYKPRTSQSEFVVSANKYLEAKNSKISVGMRFKMRFEGDEAPERRFSGTIIGVGSMSTSPWANSDWRSLK 338
                      789******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.58E-44119259IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.6E-41125245IPR015300DNA-binding pseudobarrel domain
CDDcd100177.80E-22128230No hitNo description
SMARTSM010191.5E-22130232IPR003340B3 DNA binding domain
PfamPF023625.4E-21130230IPR003340B3 DNA binding domain
PROSITE profilePS5086311.462130232IPR003340B3 DNA binding domain
PfamPF065071.9E-34256338IPR010525Auxin response factor
PfamPF023095.1E-13537641IPR033389AUX/IAA domain
PROSITE profilePS5174525.319550643IPR000270PB1 domain
SuperFamilySSF542776.54E-12552629No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009734Biological Processauxin-activated signaling pathway
GO:0010150Biological Processleaf senescence
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0042802Molecular Functionidentical protein binding
Sequence ? help Back to Top
Protein Sequence    Length: 680 aa     Download sequence    Send to blast
MAGSVAAAAA AAASGGGTGS SCDALYRELW HACAGPLVTV PRQGELVYYF PQGHMEQLEA  60
STDQQLDQHL PLFNLPSKIL CKVVNVELRA ETDSDEVYAQ IMLQPEADQN ELTSPKPEPH  120
EPEKCNVHSF CKTLTASDTS THGGFSVLRR HAEECLPPLD MTQNPPWQEL VARDLHGNEW  180
HFRHIFRGQP RRHLLTTGWS VFVSSKRLVA GDAFIFLRGE NGELRVGVRR LMRQLNNMPS  240
SVISSHSMHL GVLATASHAI STGTLFSVFY KPRTSQSEFV VSANKYLEAK NSKISVGMRF  300
KMRFEGDEAP ERRFSGTIIG VGSMSTSPWA NSDWRSLKVQ WDEPSVVPRP DRVSPWELEP  360
LAASNSQSSP QPPARNKRAR PPASNSIAPE LPPVFGLWKS SAESTQGFSF SGLQRTQELY  420
PSSPNLIFST SLNVGFSTKN EPSALSNKHF YWPMRETRAD SYSASISKVP SEKKQEPSSA  480
GCRLFGIEIS SAVEATSPLA AVSGVGQDQP AASVDAESDQ LSQPSHANKS DAPAASSEPS  540
PHETQSRQVR SCTKVIMQGM AVGRAVDLTR LHGYDDLRCK LEEMFDIQGE LSASLKKWKV  600
VYTDDEDDMM LVGDDPWPEF CSMVKRIYIY TYEEAKQLTP KLKLPIIGDA IKPNPNKQSP  660
ESDMPHSDLD STAPVTDKDC
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A0.083682361Auxin response factor 1
4ldw_A0.083682361Auxin response factor 1
4ldw_B0.083682361Auxin 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).
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00097PBMTransfer from AT1G59750Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0700260.0AK070026.1 Oryza sativa Japonica Group cDNA clone:J023036G16, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015625501.10.0auxin response factor 7
SwissprotQ6YVY00.0ARFG_ORYSJ; Auxin response factor 7
TrEMBLA0A0E0CM010.0A0A0E0CM01_9ORYZ; Auxin response factor
STRINGOMERI02G19450.10.0(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
AT1G59750.40.0auxin 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]