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_Os01g72490.2
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 SRS
Protein Properties Length: 341aa    MW: 34771.2 Da    PI: 7.627
Description SRS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os01g72490.2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF702230.23.5e-711112694154
            DUF702   4 gtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaaskrkrelkskkqsalsstklssaes 96 
                       g+a+CqdCGnqakkdC h+RCRtCCksrgfdC+thvkstWvpaa+rrerqq + +ass+ a+++a+aask++r l  ++q+++s+t++s+a++
  LOC_Os01g72490.2 111 GAATCQDCGNQAKKDCGHQRCRTCCKSRGFDCSTHVKSTWVPAARRRERQQLTGSASSSPATASAAAASKKPRLL--TSQTTTSHTSTSNATT 201
                       6789*********************************************************************87..88999999******** PP

            DUF702  97 kkeletss..........lPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154
                       +++++t+s          lP++v+++avfrcvrv+s+ddge+e+aYq++v+i+GhvfkG+LydqG+++
  LOC_Os01g72490.2 202 PRSFDTTSshqdasfresLPRQVRAPAVFRCVRVTSIDDGEDEYAYQATVTINGHVFKGFLYDQGVDD 269
                       *****99999*******************************************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF051421.6E-63112268IPR007818Protein of unknown function DUF702
TIGRFAMsTIGR016235.8E-27114156IPR006510Zinc finger, lateral root primordium type 1
TIGRFAMsTIGR016243.7E-29220267IPR006511Lateral Root Primordium type 1, C-terminal
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009733Biological Processresponse to auxin
GO:0048364Biological Processroot development
GO:0042803Molecular Functionprotein homodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 341 aa     Download sequence    Send to blast
MADVGMVVVT PAASFHHTHH HHHHHEAAAA AAAAAAAAAD PIFPLLSAGP CVLDPDKSAA  60
SGSAIQFWQP PPQLPSSAAG GNPNPSSSAF PYLKKPLPML DTGGGSSGSG GAATCQDCGN  120
QAKKDCGHQR CRTCCKSRGF DCSTHVKSTW VPAARRRERQ QLTGSASSSP ATASAAAASK  180
KPRLLTSQTT TSHTSTSNAT TPRSFDTTSS HQDASFRESL PRQVRAPAVF RCVRVTSIDD  240
GEDEYAYQAT VTINGHVFKG FLYDQGVDDG RGLAATSNDD STAGGVPNIS ELHLGGASIS  300
GNAMREGGSS MVHSDLYGGG GGSGGGPHIL GGSSYGNTMN *
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.93550.0callus| flower| leaf| panicle| root| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329876530.0
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed during the early stages of root primordium development and disappears prior to the emergence of lateral roots from the parent root. {ECO:0000269|PubMed:7647564}.
UniprotTISSUE SPECIFICITY: Restricted to lateral root primordia. {ECO:0000269|PubMed:7647564}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that binds DNA on 5'-ACTCTAC-3' and promotes auxin homeostasis-regulating gene expression (e.g. YUC genes), as well as genes affecting stamen development, cell expansion and timing of flowering. Synergistically with other SHI-related proteins, regulates gynoecium, stamen and leaf development in a dose-dependent manner, controlling apical-basal patterning. Promotes style and stigma formation, and influence vascular development during gynoecium development. May also have a role in the formation and/or maintenance of the shoot apical meristem (SAM). Modulates root growth. {ECO:0000269|PubMed:16740146, ECO:0000269|PubMed:18835563}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os01g72490.2
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Expression repressed by LDL1 via histone H3 and H4 deacetylation. {ECO:0000269|PubMed:18835563}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs01g72490
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1024440.0AK102444.1 Oryza sativa Japonica Group cDNA clone:J033093N15, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015622050.10.0protein LATERAL ROOT PRIMORDIUM 1
SwissprotQ94CK92e-66LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBLB8A9L50.0B8A9L5_ORYSI; Uncharacterized protein
STRINGOS01T0954500-010.0(Oryza sativa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G12330.23e-61Lateral root primordium (LRP) protein-related
Publications ? help Back to Top
  1. Estornell LH,Landberg K,Cierlik I,Sundberg E
    SHI/STY Genes Affect Pre- and Post-meiotic Anther Processes in Auxin Sensing Domains in Arabidopsis.
    Front Plant Sci, 2018. 9: p. 150
    [PMID:29491878]