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_Os12g40120.1
Common NameLOC4352681, Os12g0592300, OsJ_36713
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 B3
Protein Properties Length: 359aa    MW: 41098.3 Da    PI: 6.7453
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os12g40120.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B347.43.4e-15381201498
                       T-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS..SEE..EEEEE- CS
                B3  14 grlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr..sefelvvkvfr 98 
                       + +++p k a++++g+ ++     l+ +sg++W+v +  +k  ++ +l +GW++F+ka++L+e+D + F+ +gr   +f++ v +f+
  LOC_Os12g40120.1  38 HGISIPEKVADRFSGQITK--GFNLKAPSGETWRVSV--EKVADELILMSGWEDFAKAHELQENDLLFFTCNGRcnGSFSFDVLIFD 120
                       459**********888555..59999***********..*******************************99874455666666665 PP
2B342.71e-13252348198
                       EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEE.TTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS.SEE. CS
                B3   1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltled.esgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr.sefe 91 
                       f++vl  +  +++g+l++p  fa++h  +  +s+++ l+   + ++W vk+ +  + +++  +  W +F ++n+L+eg +++F+l++  ++ +
  LOC_Os12g40120.1 252 FVTVLQAPQIHRKGLLIVPSGFAADHLDS--RSQEILLMRpNKKEKWYVKYYHASTTRGFNCQ-RWIKFIRENRLREGYICIFELMKGaRRVT 341
                       788888999999**************544..44566666637779******556666666666.9*******************997779999 PP

                       .EEEEE- CS
                B3  92 lvvkvfr 98 
                       ++v+v+ 
  LOC_Os12g40120.1 342 MTVHVIG 348
                       9999986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019369.02E-1821124IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086312.16725122IPR003340B3 DNA binding domain
CDDcd100179.42E-1427120No hitNo description
Gene3DG3DSA:2.40.330.102.7E-1728124IPR015300DNA-binding pseudobarrel domain
SMARTSM010191.5E-528122IPR003340B3 DNA binding domain
PfamPF023621.7E-1237117IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.103.4E-17245348IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.35E-18245348IPR015300DNA-binding pseudobarrel domain
CDDcd100171.43E-14250347No hitNo description
PROSITE profilePS5086311.899252350IPR003340B3 DNA binding domain
SMARTSM010197.6E-10252350IPR003340B3 DNA binding domain
PfamPF023622.0E-12252348IPR003340B3 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
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009049anatomyinflorescence
PO:0001083developmental stageinflorescence development stage
PO:0007006developmental stageIL.00 inflorescence just visible stage
Sequence ? help Back to Top
Protein Sequence    Length: 359 aa     Download sequence    Send to blast
MGEKGCESCR EWQEHCYREH MDVSRIRFFR LMTGDFAHGI SIPEKVADRF SGQITKGFNL  60
KAPSGETWRV SVEKVADELI LMSGWEDFAK AHELQENDLL FFTCNGRCNG SFSFDVLIFD  120
ASGCEKVSCF FIGKKNSIGG QTQNAEQYHL SDSEDTSTPS TFLVGSPHKA STSKKLNGKT  180
KTNPRKEPED PNSSRSHVKH EMIEEEKSDD DDEHADYEHA DYYYSRFANY LTGEEREEIF  240
SLVSLQPGNP VFVTVLQAPQ IHRKGLLIVP SGFAADHLDS RSQEILLMRP NKKEKWYVKY  300
YHASTTRGFN CQRWIKFIRE NRLREGYICI FELMKGARRV TMTVHVIGKV DDRFVLLG*
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1154893690.0
Expression AtlasQ2QMT2-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os12g40120.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs12g40120
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAL8317970.0AL831797.4 Oryza sativa chromosome 12, . BAC OSJNBa0010M16 of library OSJNBa from chromosome 12 of cultivar Nipponbare of ssp. japonica of Oryza sativa (rice), complete sequence.
GenBankAP0149680.0AP014968.1 Oryza sativa Japonica Group DNA, chromosome 12, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015619600.10.0B3 domain-containing protein Os12g0592300 isoform X2
SwissprotQ2QMT20.0Y1223_ORYSJ; B3 domain-containing protein Os12g0592300
TrEMBLA0A0E0GW030.0A0A0E0GW03_ORYNI; Uncharacterized protein
TrEMBLA0A0E0RJG10.0A0A0E0RJG1_ORYRU; Uncharacterized protein
TrEMBLA2ZM950.0A2ZM95_ORYSI; Uncharacterized protein
STRINGORUFI12G19440.10.0(Oryza rufipogon)
STRINGONIVA03G41700.10.0(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP56234179
Representative plantOGRP6299819
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G33280.12e-24B3 family protein
Publications ? help Back to Top
  1. Rice Chromosomes 11 and 12 Sequencing Consortia
    The sequence of rice chromosomes 11 and 12, rich in disease resistance genes and recent gene duplications.
    BMC Biol., 2005. 3: p. 20
    [PMID:16188032]