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 ONIVA05G26000.1
Organism
Oryza nivara
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 RAV
Protein Properties Length: 394aa    MW: 41376.9 Da    PI: 10.055
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ONIVA05G26000.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP239.51.4e-1267115155
              AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 
                      s+ykGV   + +grW A+I++      r +r++lg+f  + eAa+a++ a+++++g
  ONIVA05G26000.1  67 SKYKGVVPQP-NGRWGAQIYE------RhQRVWLGTFTGEAEAARAYDVAAQRFRG 115
                      89****9888.8*********......44**********99*************98 PP
2B393.31.7e-29193306192
                      EEEE-..-HHHHTT-EE--HHH.HTT......................---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHH CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......................ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkan 72 
                      f+k+ tpsdv+k++rlv+pk++ae+h                      gg + +++ l +ed  g++W+++++y+++s++yvltkGW++Fvk++
  ONIVA05G26000.1 193 FDKTVTPSDVGKLNRLVIPKQHAEKHfplqlppptttssvaaaadaaaGGGECKGVLLNFEDAAGKVWKFRYSYWNSSQSYVLTKGWSRFVKDK 286
                      89***************************99999999888888888885566699*************************************** PP

                      T--TT-EEEEEE-SSSEE.. CS
               B3  73 gLkegDfvvFkldgrsefel 92 
                      gL +gD v F++   ++++l
  ONIVA05G26000.1 287 GLHAGDAVGFYRAAGKNAQL 306
                      ***********765555555 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF541711.7E-1667123IPR016177DNA-binding domain
PfamPF008472.7E-867115IPR001471AP2/ERF domain
CDDcd000183.98E-2367123No hitNo description
Gene3DG3DSA:3.30.730.101.5E-1968123IPR001471AP2/ERF domain
SMARTSM003803.2E-2668129IPR001471AP2/ERF domain
PROSITE profilePS5103219.86268123IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.101.1E-39183320IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.83E-28191311IPR015300DNA-binding pseudobarrel domain
CDDcd100171.12E-26191298No hitNo description
PfamPF023621.2E-26193308IPR003340B3 DNA binding domain
SMARTSM010196.1E-21193313IPR003340B3 DNA binding domain
PROSITE profilePS5086312.167193314IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 394 aa     Download sequence    Send to blast
MDSTSCLLDD ASSGASTGKK AAAAAASKAL QRVGSGASAV MDAAEPGAEA DSGGERRGGG  60
GGKLPSSKYK GVVPQPNGRW GAQIYERHQR VWLGTFTGEA EAARAYDVAA QRFRGRDAVT  120
NFRPLAESDP EAAVELRFLA SRSKAEVVDM LRKHTYLEEL TQNKRAFAAI SPPPPKHPAS  180
SPPSSSAARE HLFDKTVTPS DVGKLNRLVI PKQHAEKHFP LQLPPPTTTS SVAAAADAAA  240
GGGECKGVLL NFEDAAGKVW KFRYSYWNSS QSYVLTKGWS RFVKDKGLHA GDAVGFYRAA  300
GKNAQLFIDC KVRAKPTTAA AAAAFLSAVA AAAAPPPAVK AIRLFGVDLL TAAAPELQDA  360
GGAAMTKSKR AMDAMAESQA HVVFKKQCIE LALT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A1e-4819031411118DNA-binding protein RAV1
Search in ModeBase
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00025PBMTransfer from AT1G68840Download
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
GenBankCP0126130.0CP012613.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 5 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015637817.10.0AP2/ERF and B3 domain-containing protein Os05g0549800
SwissprotQ6L4H40.0Y5498_ORYSJ; AP2/ERF and B3 domain-containing protein Os05g0549800
TrEMBLA0A0E0HHS80.0A0A0E0HHS8_ORYNI; Uncharacterized protein
STRINGONIVA05G26000.10.0(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP45638203
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G25560.16e-95RAV family protein
Publications ? help Back to Top
  1. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]