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_Os12g39850.1
Common NameLOC107276154, Os12g0589000, OsJ_36693, OSNPB_120589000
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: 305aa    MW: 32970.3 Da    PI: 4.644
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os12g39850.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH34.14.9e-112322721055
                       HHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
               HLH  10 rrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                       r+RR+riN+++ +L+ l+P+      +K++ +++Le+Av+Y+k Lq
  LOC_Os12g39850.1 232 RKRRERINERLKTLQNLVPNG-----TKVDISTMLEEAVHYVKFLQ 272
                       9******************97.....8******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088815.205222271IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474591.7E-14224288IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.102.9E-13227285IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003533.6E-12228277IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000836.19E-13231276No hitNo description
PfamPF000102.1E-8232272IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009733Biological Processresponse to auxin
GO:0016049Biological Processcell growth
GO:0048766Biological Processroot hair initiation
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 305 aa     Download sequence    Send to blast
MEGGGLIADM SWTVFDLPSH SDESEMMAQL FSAFPIHGEE EGHEQLPWFD QSSNPCYYSC  60
NASSTAYSNS NASSIPAPSE YEGYCFSDSN EALGVSSSIA PHDLSMVQVQ GATEFLNVIP  120
NHSLDSFGNG ELGHEDLDSV SGTNKRKQSA EGEFDGQTRG SKCARKAEPK RAKKAKQTVE  180
KDASVAIPNG SCSISDNDSS SSQEVADAGA TSKGKSRAGR GAATDPQSLY ARKRRERINE  240
RLKTLQNLVP NGTKVDISTM LEEAVHYVKF LQLQIKLLSS DEMWMYAPIA YNGMNIGLDL  300
NIDT*
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1154541321e-70
Expression AtlasQ2QMV9-
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Roots. {ECO:0000269|PubMed:12679534}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os12g39850.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By jasmonic acid (JA) treatment. {ECO:0000269|PubMed:12679534}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs12g39850
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAL9548520.0AL954852.5 Oryza sativa chromosome 12, . BAC OJ1573_A06 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_015619496.10.0transcription factor bHLH85
SwissprotQ84WK06e-51BH085_ARATH; Transcription factor bHLH85
TrEMBLA0A0E0JBT20.0A0A0E0JBT2_ORYNI; Uncharacterized protein
TrEMBLA2ZM740.0A2ZM74_ORYSI; Uncharacterized protein
TrEMBLQ2QMV90.0Q2QMV9_ORYSJ; Helix-loop-helix DNA-binding domain containing protein
STRINGOS12T0589000-000.0(Oryza sativa)
STRINGONIVA12G15960.10.0(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP43103270
Representative plantOGRP10481454
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G14760.12e-52bHLH 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]
  2. Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH
    Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature.
    Differentiation, 2010. 80(1): p. 1-8
    [PMID:20219281]
  3. Rymen B, et al.
    ABA Suppresses Root Hair Growth via the OBP4 Transcriptional Regulator.
    Plant Physiol., 2017. 173(3): p. 1750-1762
    [PMID:28167701]
  4. Han H, et al.
    Altered expression of the TaRSL2 gene contributed to variation in root hair length during allopolyploid wheat evolution.
    Planta, 2017. 246(5): p. 1019-1028
    [PMID:28770336]