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 LOC_Os04g55520.1
Common NameLOC4337215, Os04g0648900, OsJ_16418, OSJNBa0010D21.10, OSNPB_040648900
Organism
Oryza sativa subsp. japonica
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; Oryza sativa
Family ERF
Protein Properties Length: 234aa    MW: 25434.2 Da    PI: 10.0932
Description ERF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os04g55520.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP252.99.4e-1761110255
               AP2   2 gykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                       +y+GVr +k +g+WvAeIr+p +   r+r++lg++ t+  Aa+a++ a  +l+g
  LOC_Os04g55520.1  61 QYRGVRMRK-WGKWVAEIREPHK---RTRIWLGSYATPVAAARAYDTAVFYLRG 110
                       69*****99.**********732...5*************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.730.103.0E-3060119IPR001471AP2/ERF domain
PROSITE profilePS5103222.58961118IPR001471AP2/ERF domain
SuperFamilySSF541711.9E-2161119IPR016177DNA-binding domain
SMARTSM003806.7E-3761124IPR001471AP2/ERF domain
PfamPF008472.5E-1061110IPR001471AP2/ERF domain
CDDcd000189.77E-2662119No hitNo description
PRINTSPR003676.0E-126273IPR001471AP2/ERF domain
PRINTSPR003676.0E-12100120IPR001471AP2/ERF 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
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0020104anatomyleaf sheath
Sequence ? help Back to Top
Protein Sequence    Length: 234 aa     Download sequence    Send to blast
MQGEYHRSSS EDSAASAAAA AAAAAAAMAP LAAAAAAVAA KEEQAAAAAV LPLQQQQPRR  60
QYRGVRMRKW GKWVAEIREP HKRTRIWLGS YATPVAAARA YDTAVFYLRG RSARLNFPEE  120
ISSLASLSEG GGASEPREPD GGTLSAASIR KKAIEVGSRV DALQTGMMVA PTTHHRERQK  180
HHHHHHHHHP HLQPHGEEQH HHHEQKHQRT AWSGRAKNPD LNQAPSPENS DAE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
2gcc_A3e-1562123668ATERF1
3gcc_A3e-1562123668ATERF1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.226290.0callus| leaf| panicle| root| seed| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1172349600.0
Expression AtlasQ7XTV6-
Functional Description ? help Back to Top
Source Description
UniProtProbably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). {ECO:0000250}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00276DAPTransfer from AT2G23340Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os04g55520.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs04g55520
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0610950.0AK061095.1 Oryza sativa Japonica Group cDNA clone:006-207-A04, full insert sequence.
GenBankAK0993330.0AK099333.1 Oryza sativa Japonica Group cDNA clone:J033003O11, full insert sequence.
GenBankAL6066350.0AL606635.3 Oryza sativa genomic DNA, chromosome 4, BAC clone: OSJNBa0010D21, complete sequence.
GenBankAP0149600.0AP014960.1 Oryza sativa Japonica Group DNA, chromosome 4, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015637236.11e-166ethylene-responsive transcription factor ERF008
SwissprotO221743e-50ERF08_ARATH; Ethylene-responsive transcription factor ERF008
TrEMBLQ7XTV61e-165Q7XTV6_ORYSJ; OSJNBa0010D21.10 protein
STRINGOS04T0648900-011e-166(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP39433075
Representative plantOGRP6161718
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G23340.13e-42DREB and EAR motif protein 3
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Sazegari S,Niazi A,Ahmadi FS
    A study on the regulatory network with promoter analysis for Arabidopsis DREB-genes.
    Bioinformation, 2015. 11(2): p. 101-6
    [PMID:25848171]