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_Os08g32990.1
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 HB-other
Protein Properties Length: 249aa    MW: 27894.7 Da    PI: 4.0627
Description HB-other family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os08g32990.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox15.53e-051331711145
                       HHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHH CS
          Homeobox  11 qleeLeelFeknrypsaeereeLAkkl....gLterqVk 45 
                       ++e+Le+++  +++p+ ++r++L  ++    +++ +q+k
  LOC_Os08g32990.1 133 EVEALERVYTDCPKPTSARRQQLLCECpilaNIEPKQIK 171
                       6799***********************999999999998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.90.940.101.2E-2460134IPR012293RNA polymerase subunit, RPB6/omega
SuperFamilySSF635623.14E-2161138IPR006110RNA polymerase, subunit omega/K/RPB6
PfamPF011921.0E-895131IPR006110RNA polymerase, subunit omega/K/RPB6
PROSITE patternPS011110100114IPR020708DNA-directed RNA polymerase, 14-18kDa subunit, conserved site
CDDcd000860.0024131171No hitNo description
Gene3DG3DSA:1.10.10.606.0E-4135171IPR009057Homeodomain-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006351Biological Processtranscription, DNA-templated
GO:0003677Molecular FunctionDNA binding
GO:0003899Molecular FunctionDNA-directed RNA polymerase activity
Sequence ? help Back to Top
Protein Sequence    Length: 249 aa     Download sequence    Send to blast
MAEDDYNDMD MGCCQVCQQS GFIQNVRNYA DFWVTRYEDE PPEPEIEEEL CGLFTFSELE  60
GAEEEPENNN EDAVDDVVGA EDDREQEKTA RPWKTSKYMT KYERARILST RALQISMNAP  120
VMVELEGGTY PLEVEALERV YTDCPKPTSA RRQQLLCECP ILANIEPKQI KFSLFSVTKT  180
LVMAVLGTQV AAHHNGHGTS HENHTQESES SVEQHDPESQ DDISIKATPA DESPPEETSA  240
APTKEQVT*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3h0g_F2e-139514571121DNA-directed RNA polymerases I, II, and III subunit RPABC2
3h0g_R2e-139514571121DNA-directed RNA polymerases I, II, and III subunit RPABC2
5u0s_f2e-139514571121RNA polymerase II subunit Rpb6
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.68994e-70callus| flower| leaf| panicle| root| seed| stem| vegetative meristem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329881354e-70
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os08g32990.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs08g32990
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0044631e-112AP004463.2 Oryza sativa Japonica Group genomic DNA, chromosome 8, PAC clone:P0456B03.
GenBankAP0149641e-112AP014964.1 Oryza sativa Japonica Group DNA, chromosome 8, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006657672.15e-34PREDICTED: DNA-directed RNA polymerases II, IV and V subunit 6A-like
TrEMBLA0A0E0QJ830.0A0A0E0QJ83_ORYRU; Uncharacterized protein
STRINGORUFI08G17160.10.0(Oryza rufipogon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP2375144
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G34710.19e-17HD-ZIP family protein