PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID ORGLA03G0138900.1
Organism
Oryza glaberrima
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
Family MYB
Protein Properties Length: 357aa    MW: 38679.9 Da    PI: 5.1982
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORGLA03G0138900.1genomeAGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding569.1e-181461148
                       TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
    Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                       rgrWTteEde+l+ +++++G g+W++ ++  g+ R++k+c++rw +yl
  ORGLA03G0138900.1 14 RGRWTTEEDEKLAGYIAKHGEGSWRSLPKNAGLLRCGKSCRLRWINYL 61
                       8*******************************99************97 PP
2Myb_DNA-binding431e-1367138148
                        TSSS-HHHHHHHHHHHHHTTTT.........................-HHHHHHHHTTTS-HHHHHHHHHHHT CS
    Myb_DNA-binding   1 rgrWTteEdellvdavkqlGgg.........................tWktIartmgkgRtlkqcksrwqkyl 48 
                        rg+ + +E++ ++++++ lG++                         +W++Ia++++ gRt++++k++w+++l
  ORGLA03G0138900.1  67 RGNISNQEEDVIIKLHATLGNRksyvvkrreyvclgardycfqqnthRWSLIASHLP-GRTDNEIKNYWNSHL 138
                        788999***************************************************.************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.601.1E-21564IPR009057Homeodomain-like
PROSITE profilePS5129421.437965IPR017930Myb domain
SMARTSM007171.7E-111363IPR001005SANT/Myb domain
SuperFamilySSF466895.29E-211465IPR009057Homeodomain-like
PfamPF002491.0E-151461IPR001005SANT/Myb domain
CDDcd001675.61E-101661No hitNo description
Gene3DG3DSA:1.10.10.604.2E-2065142IPR009057Homeodomain-like
SMARTSM007175.7E-1266140IPR001005SANT/Myb domain
PROSITE profilePS5129410.48366142IPR017930Myb domain
PfamPF002492.9E-1167138IPR001005SANT/Myb domain
CDDcd001672.08E-771138No hitNo description
SuperFamilySSF466895.29E-21110138IPR009057Homeodomain-like
PfamPF066405.8E-83156357IPR010588Myb-related protein P, C-terminal
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009651Biological Processresponse to salt stress
GO:0009723Biological Processresponse to ethylene
GO:0009733Biological Processresponse to auxin
GO:0009813Biological Processflavonoid biosynthetic process
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 357 aa     Download sequence    Send to blast
MGRAPCCEKV GLKRGRWTTE EDEKLAGYIA KHGEGSWRSL PKNAGLLRCG KSCRLRWINY  60
LRAGVKRGNI SNQEEDVIIK LHATLGNRKS YVVKRREYVC LGARDYCFQQ NTHRWSLIAS  120
HLPGRTDNEI KNYWNSHLSR QIHTYRRTYT APSEAAVTID VTKLQAAGKR RGGRTAGQSR  180
KGDKKRAEDD PPKETAAADT PLPESSPRRA QSDEARSGSV VVDPEEPSSQ PNNGSSGGGG  240
GTPDGPCSEE TATGPTSLDP MEMGLWEAES EFAEMEALLC GGVAPDGPGI PGLEPLDVAA  300
QADDLLDMDW DGFAADLWGD PAQRGGLVQD AGEPNGSMGC SSDELESFAS WLLSDSC
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A1e-18121445110B-MYB
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor postulated to regulate the biosynthetic pathway of a flavonoid-derived pigment in certain floral tissues.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00627PBMTransfer from PK06182.1Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapORGLA03G0138900.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1372670.0AC137267.2 Genomic sequence for Oryza sativa, Nipponbare strain, clone OSJNBa0032G21, from chromosome 3, complete sequence.
GenBankAF4741410.0AF474141.1 Oryza sativa typical A-type R2R3 Myb protein gene, complete cds.
GenBankAP0149590.0AP014959.1 Oryza sativa Japonica Group DNA, chromosome 3, cultivar: Nipponbare, complete sequence.
GenBankCP0126110.0CP012611.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 3 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015629329.10.0myb-related protein P
SwissprotP278986e-87MYBP_MAIZE; Myb-related protein P
TrEMBLI1PAJ30.0I1PAJ3_ORYGL; Uncharacterized protein
STRINGORGLA03G0138900.10.0(Oryza glaberrima)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP11637448
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G47460.12e-62myb domain protein 12
Publications ? help Back to Top
  1. Robbins ML,Sekhon RS,Meeley R,Chopra S
    A Mutator transposon insertion is associated with ectopic expression of a tandemly repeated multicopy Myb gene pericarp color1 of maize.
    Genetics, 2008. 178(4): p. 1859-74
    [PMID:18430921]
  2. Sidorenko L,Chandler V
    RNA-dependent RNA polymerase is required for enhancer-mediated transcriptional silencing associated with paramutation at the maize p1 gene.
    Genetics, 2008. 180(4): p. 1983-93
    [PMID:18845841]
  3. Robbins ML,Wang P,Sekhon RS,Chopra S
    Gene structure induced epigenetic modifications of pericarp color1 alleles of maize result in tissue-specific mosaicism.
    PLoS ONE, 2009. 4(12): p. e8231
    [PMID:20011605]
  4. Rhee Y,Sekhon RS,Chopra S,Kaeppler S
    Tissue culture-induced novel epialleles of a Myb transcription factor encoded by pericarp color1 in maize.
    Genetics, 2010. 186(3): p. 843-55
    [PMID:20823340]
  5. Morohashi K, et al.
    A genome-wide regulatory framework identifies maize pericarp color1 controlled genes.
    Plant Cell, 2012. 24(7): p. 2745-64
    [PMID:22822204]