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_Os12g40710.1
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: 267aa    MW: 27783.9 Da    PI: 10.7071
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os12g40710.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH44.92.1e-1486133455
                       HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
               HLH   4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                       ahn  E+rRR +i ++f +L++l+P +    + K + a++L ++++Y+ksLq
  LOC_Os12g40710.1  86 AHNLTEKRRRFKITERFRTLQRLVPGC----DNKSNQASTLDQTIQYMKSLQ 133
                       8*************************9....89******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF474593.79E-1781141IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088816.03782132IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000831.72E-1486137No hitNo description
Gene3DG3DSA:4.10.280.101.1E-1786139IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000104.1E-1286133IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003536.8E-1388138IPR011598Myc-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: 267 aa     Download sequence    Send to blast
MAAWLYPIVG GHQVAAGGWL SPEAGDDRRA APPAPEKKQM DNMPAVASPT MNKDEASDDS  60
GERKKKKKKA SSAAGKASRH RHAAGAHNLT EKRRRFKITE RFRTLQRLVP GCDNKSNQAS  120
TLDQTIQYMK SLQHQLEATS AVGSPAAAVL YPAAVHPQSY MHPPAPPPPV AGAAAPVTMA  180
PMPAGMVLAA APPGAAPPPG PPATMMPFGA MLPYPPYPEV LLPPPPATLY GRPPAAAPSV  240
AARRHGSTSG GGRISKSSSS SLRKEL*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
16167ERKKKKK
26268RKKKKKK
39095EKRRRF
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.698001e-94callus| flower
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO2977293641e-94
Expression AtlasQ2QMM0-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os12g40710.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs12g40710
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAL7325350.0AL732535.4 Oryza sativa chromosome 12, . BAC OSJNBa0035N13 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_015619315.11e-156transcription factor APG
TrEMBLQ2QMM00.0Q2QMM0_ORYSJ; Helix-loop-helix DNA-binding domain containing protein
STRINGOBART12G17960.11e-122(Oryza barthii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP62832452
Representative plantOGRP10440410
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G09530.22e-12phytochrome interacting factor 3
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]