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 OGLUM05G26380.1
Organism
Oryza glumaepatula
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: 403aa    MW: 41996.6 Da    PI: 10.0662
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OGLUM05G26380.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP239.51.4e-1274122155
              AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 
                      s+ykGV   + +grW A+I++      r +r++lg+f  + eAa+a++ a+++++g
  OGLUM05G26380.1  74 SKYKGVVPQP-NGRWGAQIYE------RhQRVWLGTFTGEAEAARAYDVAAQRFRG 122
                      89****9888.8*********......44**********99*************98 PP
2B391.18.2e-29201314192
                      EEEE-..-HHHHTT-EE--HHH.HTT.......................---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHH CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......................ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvka 71 
                      f+k+ tpsdv+k++rlv+pk++ae+h                       g  + +++ l +ed  g++W+++++y+++s++yvltkGW++Fvk+
  OGLUM05G26380.1 201 FDKTVTPSDVGKLNRLVIPKQHAEKHfplqlppptttssvaaaadaaaaG-GECKGVLLNFEDAAGKVWRFRYSYWNSSQSYVLTKGWSRFVKE 293
                      89***************************888888888777777777743.34499************************************** PP

                      HT--TT-EEEEEE-SSSEE.. CS
               B3  72 ngLkegDfvvFkldgrsefel 92 
                      +gL +gD v F++   ++++l
  OGLUM05G26380.1 294 KGLHAGDAVGFYRAAGKNAQL 314
                      ************765555555 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF541711.77E-1674130IPR016177DNA-binding domain
CDDcd000187.43E-2374130No hitNo description
PfamPF008472.8E-874122IPR001471AP2/ERF domain
SMARTSM003803.2E-2675136IPR001471AP2/ERF domain
PROSITE profilePS5103219.86275130IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.101.5E-1975130IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.101.3E-39192327IPR015300DNA-binding pseudobarrel domain
CDDcd100173.01E-26199306No hitNo description
SuperFamilySSF1019362.62E-28199319IPR015300DNA-binding pseudobarrel domain
PfamPF023624.2E-26201316IPR003340B3 DNA binding domain
SMARTSM010192.6E-20201321IPR003340B3 DNA binding domain
PROSITE profilePS5086312.041201322IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation 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: 403 aa     Download sequence    Send to blast
MDSTSCLLDD ASSGASTGKK AAAAAPAAKA LQRVGSGASA VMDAAEPGAE ADSGGERRGG  60
GGGGGGGGGK LPSSKYKGVV PQPNGRWGAQ IYERHQRVWL GTFTGEAEAA RAYDVAAQRF  120
RGRDAVTNFR PLAESDPEAA VELRFLASRS KAEVVDMLRK HTYLEELAQN KRAFAAISPP  180
PPKHPASSPP SSSAAAREHL FDKTVTPSDV GKLNRLVIPK QHAEKHFPLQ LPPPTTTSSV  240
AAAADAAAAG GECKGVLLNF EDAAGKVWRF RYSYWNSSQS YVLTKGWSRF VKEKGLHAGD  300
AVGFYRAAGK NAQLFIDCKV RAKPTTTAAA AAFLSAVAAA AAPPPAVKAI RLFGVDLLTG  360
AAAPELQDAG GAAMIKSKRA MDAMAESQAH VVFKKQCIEL ALT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A1e-461953232115B3 domain-containing transcription factor NGA1
5os9_B1e-461953232115B3 domain-containing transcription factor NGA1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
15769RGGGGGGGGGGGK
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1307250.0AC130725.2 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone P0494H05, complete sequence.
GenBankAC1359250.0AC135925.2 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone P0560C03, complete sequence.
GenBankAC1364920.0AC136492.3 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone P0554F08, complete sequence.
GenBankAP0149610.0AP014961.1 Oryza sativa Japonica Group DNA, chromosome 5, cultivar: Nipponbare, complete sequence.
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
TrEMBLA0A0E0A2E50.0A0A0E0A2E5_9ORYZ; Uncharacterized protein
STRINGOGLUM05G26380.10.0(Oryza glumipatula)
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-96RAV 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]