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_Os04g47040.1
Common NameLOC4336634, Os04g0557200, OsJ_15745, OSNPB_040557200
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: 560aa    MW: 61025.4 Da    PI: 4.8563
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os04g47040.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH40.64.7e-13383429354
                       HHHHHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS
               HLH   3 rahnerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54 
                       ++h + ErrRR+++N+ f  L++++P+        K++Ka+iLe+++ Y+k L
  LOC_Os04g47040.1 383 KNHVISERRRREKLNEMFLILKSIVPSiH------KVDKASILEETIAYLKVL 429
                       57999**********************66......***************977 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF142158.3E-5121202IPR025610Transcription factor MYC/MYB N-terminal
PROSITE profilePS5088815.834380429IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000836.32E-15383434No hitNo description
SuperFamilySSF474591.57E-17383450IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.108.9E-16384447IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.6E-10384429IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003532.6E-14386435IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0046983Molecular Functionprotein dimerization activity
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009037anatomylemma
PO:0001047developmental stagelemma development stage
PO:0007130developmental stagesporophyte reproductive stage
Sequence ? help Back to Top
Protein Sequence    Length: 560 aa     Download sequence    Send to blast
MASAPPVQEE PLQPGTNHFR SLLAAAVRSI SWSYAIFWSI STSCPGVLTW NDGFYNGVVK  60
TRKISNSADL TAGQLVVQRS EQLRELYYSL LSGECDHRAR RPIAALSPED LADTEWYYVV  120
CMTYSFQPGQ GLPGKSYASN ASVWLRNAQS ADSKTFLRSL LAKSASIQTI ICIPFTSGVL  180
ELGTTDPVLE DPKLVNRIVA YFQELQFPIC LEVLMSTSPS PNETEDADIV SEGLITHNAI  240
EEGQMVVSDE CVSNANRDPI TMEIDELYSI YEDLDLDMDL DLDTVRFLED NGWPVNPSSF  300
QLVPASSTEA VAAAAAANDV DGVANSQVSC FMAWKSAKSN EMAVPVVTGI ESQKLLKKVV  360
DCGARMSTGR GSRAALTQES GIKNHVISER RRREKLNEMF LILKSIVPSI HKVDKASILE  420
ETIAYLKVLE KRVKELESSS EPSHQRATET GQQRRCEITG KELVSEIGVS GGGDAGREHH  480
HVNVTVTDKV VLLEVQCRWK ELVMTRVFDA IKSLCLDVLS VQASAPDGLL GLKIQAKFAC  540
SGSVAPGMIS EALQKAIGG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4rqw_A2e-1952022192Transcription factor MYC3
4rqw_B2e-1952022192Transcription factor MYC3
4rs9_A2e-1952022192Transcription factor MYC3
4yz6_A2e-1952022192Transcription factor MYC3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1388393ERRRRE
2389394RRRREK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.498100.0flower
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO379883670.0
Expression AtlasB7F427-
Functional Description ? help Back to Top
Source Description
UniProtPutative transcriptional activator. Control tissue-specific synthesis of anthocyanin pigments in various parts of the maize plant.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os04g47040.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs04g47040
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1117040.0AK111704.1 Oryza sativa Japonica Group cDNA clone:J023013E24, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015635094.10.0anthocyanin regulatory R-S protein
SwissprotP130271e-175ARRS_MAIZE; Anthocyanin regulatory R-S protein
TrEMBLB7F4270.0B7F427_ORYSJ; Os04g0557200 protein
STRINGOS04T0557200-010.0(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP93233109
Representative plantOGRP24471429
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G63650.31e-61bHLH family protein
Publications ? help Back to Top
  1. Pattanaik S,Xie CH,Yuan L
    The interaction domains of the plant Myc-like bHLH transcription factors can regulate the transactivation strength.
    Planta, 2008. 227(3): p. 707-15
    [PMID:18075757]
  2. Huang ZA, et al.
    The upregulation of NtAN2 expression at low temperature is required for anthocyanin accumulation in juvenile leaves of Lc-transgenic tobacco (Nicotiana tabacum L.).
    J Genet Genomics, 2012. 39(3): p. 149-56
    [PMID:22464474]
  3. Perrot GH,Cone KC
    Nucleotide sequence of the maize R-S gene.
    Nucleic Acids Res., 1989. 17(19): p. 8003
    [PMID:2798145]
  4. Li P, et al.
    Combined bulked segregant sequencing and traditional linkage analysis for identification of candidate gene for purple leaf sheath in maize.
    PLoS ONE, 2018. 13(1): p. e0190670
    [PMID:29304111]