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_Os12g43620.1
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 bHLH
Protein Properties Length: 339aa    MW: 35046.4 Da    PI: 7.9208
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os12g43620.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH48.51.6e-15167213455
                       HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
               HLH   4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                        h ++ErrRR++iN++f eL +++P +     kK++Ka+iL  Av+Y+k+Lq
  LOC_Os12g43620.1 167 DHIIAERRRREKINQRFIELSTVIPGL-----KKMDKATILGDAVKYVKELQ 213
                       5999***********************.....9******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088815.993163212IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474593.66E-18167229IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.101.1E-19167222IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000104.9E-13168213IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000833.88E-16168217No hitNo description
SMARTSM003534.2E-17169218IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 339 aa     Download sequence    Send to blast
MDDSSFFMQW AMDTLHQLPS DSTAAAAYAT DVAGDSGAFP SLQALRNASA AGGGGGFRDL  60
TVQVDQVHRA NSWSSSDSPG GGAATAAAGW SPHVTGGGGR GHRPMSWNFS AASAQPTTED  120
SGGGGGGGVV PAPLQAMETT ATARAAVKKG GGGGSSSSAA APGYVQDHII AERRRREKIN  180
QRFIELSTVI PGLKKMDKAT ILGDAVKYVK ELQEKVKTLE EEDGGGRPAA MVVRKSSCSG  240
RQSAAGDGDG EGRVPEIEVR VWERSVLVRV QCGNSRGLLV RLLSEVEELR LGITHTSVMP  300
FPASTVIITI TAKASSLSNH PALLCLYICI KLPCVISS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5gnj_A3e-15167222863Transcription factor MYC2
5gnj_B3e-15167222863Transcription factor MYC2
5gnj_E3e-15167222863Transcription factor MYC2
5gnj_F3e-15167222863Transcription factor MYC2
5gnj_G3e-15167222863Transcription factor MYC2
5gnj_I3e-15167222863Transcription factor MYC2
5gnj_M3e-15167222863Transcription factor MYC2
5gnj_N3e-15167222863Transcription factor MYC2
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1171176ERRRRE
2172177RRRREK
Expression -- Microarray ? help Back to Top
Source ID
Expression AtlasQ2QLR0
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os12g43620.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs12g43620
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAL7139050.0AL713905.6 Oryza sativa chromosome 12, . BAC OJ1584_D02 of library Monsanto from chromosome 12 of cultivar Nipponbare of ssp. japonica of Oryza sativa (rice), complete sequence.
GenBankAL7318870.0AL731887.5 Oryza sativa chromosome 12, . BAC OJ1559_C07 of library Monsanto 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_015618735.10.0transcription factor NAI1 isoform X2
TrEMBLA0A0E0RKE00.0A0A0E0RKE0_ORYRU; Uncharacterized protein
TrEMBLQ2QLR00.0Q2QLR0_ORYSJ; Helix-loop-helix DNA-binding domain containing protein
STRINGORUFI12G22050.10.0(Oryza rufipogon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP92731143
Representative plantOGRP1544134
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G37850.11e-32bHLH 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]