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_Os04g50680.1
Common NameLOC4336834, Os04g0593200, OsJ_15988, OSJNBa0009P12.23, OSNPB_040593200
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 MYB
Protein Properties Length: 341aa    MW: 36876.6 Da    PI: 6.6692
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os04g50680.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding46.58.5e-151564148
                      TSSS-HHHHHHHHHHHHHTTTT..-HHHHHHHHTTTS-HHHHHHHHHHHT CS
   Myb_DNA-binding  1 rgrWTteEdellvdavkqlGgg..tWktIartmgkgRtlkqcksrwqkyl 48
                      +g+WT+eEd  lv+ +k+ Gg+  +W+  +r  g++R++k+c++rw +yl
  LOC_Os04g50680.1 15 KGPWTEEEDRALVEHIKKQGGHvgSWRGLPRAAGLNRCGKSCRLRWTNYL 64
                      79**********************************************97 PP
2Myb_DNA-binding51.62.1e-1670114147
                       TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
   Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                       rg+++ +E+ l++++++ lG++ W+tIa ++  gRt++++k++w+++
  LOC_Os04g50680.1  70 RGNFSDDEERLIIRLHAALGNK-WSTIATHLD-GRTDNEIKNYWNTH 114
                       89********************.*********.************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.603.2E-20767IPR009057Homeodomain-like
PROSITE profilePS5129415.761064IPR017930Myb domain
SuperFamilySSF466892.36E-2712111IPR009057Homeodomain-like
SMARTSM007171.8E-101466IPR001005SANT/Myb domain
PfamPF002491.6E-121564IPR001005SANT/Myb domain
CDDcd001678.59E-91764No hitNo description
PROSITE profilePS5129426.12865119IPR017930Myb domain
Gene3DG3DSA:1.10.10.601.4E-2568119IPR009057Homeodomain-like
SMARTSM007174.8E-1569117IPR001005SANT/Myb domain
PfamPF002492.0E-1470114IPR001005SANT/Myb domain
CDDcd001672.30E-1172115No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0020104anatomyleaf sheath
Sequence ? help Back to Top
Protein Sequence    Length: 341 aa     Download sequence    Send to blast
MGRSPCCCHD AGVKKGPWTE EEDRALVEHI KKQGGHVGSW RGLPRAAGLN RCGKSCRLRW  60
TNYLRPDIRR GNFSDDEERL IIRLHAALGN KWSTIATHLD GRTDNEIKNY WNTHIKKKLL  120
RMGIDPVTHQ RLPPDLLADG GGLGAASPLL SPPGPAAAAA LQPLLSAVAS LGSLDTALRQ  180
FQLLQHLLNS ITSSSSDVAA TAGLMATNLA ATNTMVNSSS NVASFQEQMN ALAHANYQPG  240
YLRDVVPSFP GQDMAPQLNS TSSTPSTAPV LRSSAEPADQ CCNDAALVPE TYPREVAASV  300
DHWKVQDFPS LEPLELPNLS TLESDLDPFW KEILESSFRS *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A3e-27151197108B-MYB
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.575140.0panicle| root| seed| stem| vegetative meristem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO2976032800.0
Expression AtlasA3AWY9-
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Specifically and transiently expressed in root endodermal cells overlying the early stages of lateral root primordia formation. {ECO:0000269|PubMed:24902892, ECO:0000269|PubMed:25482809}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that acts as negative regulator of lateral root (LR) development. Required for normal auxin responses during LR development. May be part of a negative feedback loop stimulated specifically in the endodermis upon LR initiation to ensure that LRs are formed only in the correct place. {ECO:0000269|PubMed:24902892}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os04g50680.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by abscisic acid (ABA), auxin and gravity in roots. {ECO:0000269|PubMed:24902892}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs04g50680
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2432710.0AK243271.1 Oryza sativa Japonica Group cDNA, clone: J100049K04, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015635814.10.0transcription factor MYB41
SwissprotQ9S9Z27e-67MYB93_ARATH; Transcription factor MYB93
TrEMBLA0A0E0PDF20.0A0A0E0PDF2_ORYRU; Uncharacterized protein
TrEMBLA2XX120.0A2XX12_ORYSI; Uncharacterized protein
TrEMBLA3AWY90.0A3AWY9_ORYSJ; OSJNBa0009P12.23 protein
TrEMBLQ7F9M10.0Q7F9M1_ORYSA; OSIGBa0142I02-OSIGBa0101B20.19 protein
STRINGORUFI04G25320.10.0(Oryza rufipogon)
STRINGOS04T0593200-010.0(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP62652955
Representative plantOGRP5171784
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G02940.12e-69myb domain protein 107
Publications ? help Back to Top
  1. Gibbs DJ,Coates JC
    AtMYB93 is an endodermis-specific transcriptional regulator of lateral root development in arabidopsis.
    Plant Signal Behav, 2014. 9(10): p. e970406
    [PMID:25482809]