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_Os06g11860.1
Common NameLOC4340525, P0516A04.31
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: 361aa    MW: 37817.3 Da    PI: 7.1939
Description ERF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os06g11860.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP262.96.9e-20183231355
               AP2   3 ykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                       y+GVr+++ +g+WvAeIr p++   r+r +lg+f+tae+Aa a+++a+ +l+g
  LOC_Os06g11860.1 183 YRGVRQRH-WGKWVAEIRLPKN---RTRLWLGTFDTAEDAALAYDKAAFRLRG 231
                       9******9.**********965...5*************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF541711.63E-22182240IPR016177DNA-binding domain
Gene3DG3DSA:3.30.730.101.4E-32182240IPR001471AP2/ERF domain
PROSITE profilePS5103223.446182239IPR001471AP2/ERF domain
SMARTSM003805.0E-37182245IPR001471AP2/ERF domain
CDDcd000184.41E-31183239No hitNo description
PRINTSPR003676.4E-11183194IPR001471AP2/ERF domain
PfamPF008473.4E-13183231IPR001471AP2/ERF domain
PRINTSPR003676.4E-11205221IPR001471AP2/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
Sequence ? help Back to Top
Protein Sequence    Length: 361 aa     Download sequence    Send to blast
MAAIDLYKYQ LSSSSSSSSS DQELMKALEP FIRSASPTST STSTPLFYSS SSISTTTTTP  60
FSYSSPLPQE SYYLPASSSY AAIVPPPTTT TNTTTSFSEL PPLPPSSSSF ASPANAAAVG  120
LAHLGPEQIQ QIQVQFLMQQ QLQQRGMAAS ASASAAASYL GPRAQPMKQA GAAAAAAAGG  180
KMYRGVRQRH WGKWVAEIRL PKNRTRLWLG TFDTAEDAAL AYDKAAFRLR GDAARLNFPT  240
LRRGGAHLAG PLHASIDAKL TAICHSLAAA PPASSKKAAA AAAHPDSPKG SASTTTTTSE  300
GDESAISACS PPLPPPPPPP PAALPEMANL DFTEAPWDES DAFHLYKCPS WEIDWDSILS  360
*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
2gcc_A4e-22178239163ATERF1
3gcc_A4e-22178239163ATERF1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.278030.0callus| flower| leaf| panicle| root| stem
Expression -- Microarray ? help Back to Top
Source ID
Expression AtlasQ67VY1
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Mostly expressed in roots and leaves. Also detected in flowers and stems. {ECO:0000269|PubMed:9192694}.
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os06g11860.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs06g11860
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0047270.0AP004727.2 Oryza sativa Japonica Group genomic DNA, chromosome 6, PAC clone:P0516A04.
GenBankAP0149620.0AP014962.1 Oryza sativa Japonica Group DNA, chromosome 6, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015644288.10.0ethylene-responsive transcription factor RAP2-13
SwissprotQ8H1E41e-58RAP24_ARATH; Ethylene-responsive transcription factor RAP2-4
TrEMBLQ67VY10.0Q67VY1_ORYSJ; Putative AP2-domain DRE binding factor DBF1
STRINGOPUNC06G07470.11e-160(Oryza punctata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP38235203
Representative plantOGRP6161718
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G78080.12e-42related to AP2 4
Publications ? help Back to Top
  1. Pati A,Vasquez-Robinet C,Heath LS,Grene R,Murali TM
    XcisClique: analysis of regulatory bicliques.
    BMC Bioinformatics, 2006. 7: p. 218
    [PMID:16630346]
  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. Iwase A, et al.
    WIND1-based acquisition of regeneration competency in Arabidopsis and rapeseed.
    J. Plant Res., 2015. 128(3): p. 389-97
    [PMID:25810222]
  4. Ikeuchi M, et al.
    PRC2 represses dedifferentiation of mature somatic cells in Arabidopsis.
    Nat Plants, 2015. 1: p. 15089
    [PMID:27250255]
  5. Iwase A, et al.
    WIND1 Promotes Shoot Regeneration through Transcriptional Activation of ENHANCER OF SHOOT REGENERATION1 in Arabidopsis.
    Plant Cell, 2017. 29(1): p. 54-69
    [PMID:28011694]