PlantTFDB
Plant Transcription Factor Database
v4.0
Previous version: v1.0, v2.0, v3.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID LOC_Os12g40730.1
Organism
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: 332aa    MW: 35005 Da    PI: 10.213
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os12g40730.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH292e-091692081155
                       HHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
               HLH  11 rRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                       rRR +i ++f +L++l+P +      K + a++L ++++Y+ksLq
  LOC_Os12g40730.1 169 RRRFKITERFRTLQRLVPGC-----DKSNQASTLDQTIQYMKSLQ 208
                       9******************9.....8******************9 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088811.655158207IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003536.0E-7168213IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000831.98E-9169212No hitNo description
PfamPF000105.3E-7169208IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.102.2E-12169215IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474593.4E-12169220IPR011598Myc-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: 332 aa     Download sequence    Send to blast
MWQGGGGGGA SSFDQPPPPV SYHRLSPPPP AMGTTTTTLL PEQPLVDDHH LPAAAAAPPS  60
EEEMAAWLYP IVSGHEVAGG GWRSPEAQDD RRAAPAPEKK QMEKMPAAAS PTTTMNKDET  120
SDDSGERKKK KASSAAGKSK QASPRGCRSS QPYRKSGDSI DELFTKFHRR RFKITERFRT  180
LQRLVPGCDK SNQASTLDQT IQYMKSLQHQ LKAMSVVGSP PALLYPAAVH PQSYMHPPPP  240
PPPVTMPMHP GMVLAAPPPG AAPPPGPPAM VPFGAMLPYP PYPAVLLPPP AAATLYGRPP  300
APAPGVAARR HGSSGGGRIS KSSSSSLCKK L*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.698000.0callus| flower
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO2977293640.0
Expression AtlasQ2QML8-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os12g40730.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs12g40730
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankCP0126200.0CP012620.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 12 sequence.
GenBankAP0149680.0AP014968.1 Oryza sativa Japonica Group DNA, chromosome 12, cultivar: Nipponbare, complete sequence.
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.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015619315.15e-86PREDICTED: transcription factor APG-like
TrEMBLQ2QML80.0Q2QML8_ORYSJ; Helix-loop-helix DNA-binding domain containing protein
STRINGLOC_Os12g40730.10.0(Oryza sativa Japonica Group)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP10440410
MonocotsOGMP62832452
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G09530.24e-13phytochrome 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]