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_Os07g06620.3
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 YABBY
Protein Properties Length: 157aa    MW: 17732.1 Da    PI: 9.0575
Description YABBY family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os07g06620.3genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1YABBY2207e-6811471160
             YABBY   1 advfssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakasqllaaeshldeslkeelleelkveeenlksnvekeesas 93 
                       ++v+++se+vCyv+Cn+Cntil+v+vP+++++++vtvrCGhCt++ls++la ++q++++++h        ++++++++++n+ s+++++++++
  LOC_Os07g06620.3   1 MSVQFTSEHVCYVNCNYCNTILVVNVPNNCSYNIVTVRCGHCTMVLSMDLAPFHQARTVQDH--------QVQNRGFQGNNFGSYDIASRNQR 85 
                       57999********************************************************9........99********************* PP

             YABBY  94 tsvsseklsenedeevprvppvirPPekrqrvPsaynrfikeeiqrikasnPdishreafsaaaknW 160
                       ts++++ +++++++ +p     irPPekrqrvPsaynrfikeeiqrik+snP+ishreafsaaakn 
  LOC_Os07g06620.3  86 TSTAMYPMPTSQQQVSP-----IRPPEKRQRVPSAYNRFIKEEIQRIKTSNPEISHREAFSAAAKNV 147
                       *************9999.....9*******************************************6 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046906.4E-566147IPR006780YABBY protein
SuperFamilySSF470959.03E-791145IPR009071High mobility group box domain
CDDcd000844.90E-4111138No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0007275Biological Processmulticellular organism development
Sequence ? help Back to Top
Protein Sequence    Length: 157 aa     Download sequence    Send to blast
MSVQFTSEHV CYVNCNYCNT ILVVNVPNNC SYNIVTVRCG HCTMVLSMDL APFHQARTVQ  60
DHQVQNRGFQ GNNFGSYDIA SRNQRTSTAM YPMPTSQQQV SPIRPPEKRQ RVPSAYNRFI  120
KEEIQRIKTS NPEISHREAF SAAAKNVSTL IVNTFL*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.747079e-33flower| panicle| seed| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO379905759e-33
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Detected throughout panicle development with the strongest expression in immature panicles, and weakest in mature panicles. Abundantly found in the stamen and carpel primordia of young spikelets. {ECO:0000269|PubMed:15604733, ECO:0000269|PubMed:17216490}.
UniprotTISSUE SPECIFICITY: Preferentially expressed in flowers. Expressed in leaf blades and leaf sheaths. Does not show polar expression pattern. {ECO:0000269|PubMed:15604733}.
Functional Description ? help Back to Top
Source Description
UniProtMay play a role in floral meristem development and maintenance of stamens, rather than in determining polarity in floral organs. {ECO:0000269|PubMed:15604733, ECO:0000269|PubMed:17369428}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os07g06620.3
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs07g06620
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB2740130.0AB274013.1 Oryza sativa Japonica Group OsYABBY1 mRNA for OsYABBY1 protein, complete cds.
GenBankAF0987520.0AF098752.1 Oryza sativa clone FIL1 unknown mRNA.
GenBankAK0700450.0AK070045.1 Oryza sativa Japonica Group cDNA clone:J023038F18, full insert sequence.
GenBankCT8286810.0CT828681.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCFA230C13, full insert sequence.
GenBankCT8286820.0CT828682.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCFA240F12, full insert sequence.
GenBankCT8286830.0CT828683.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCFA249C03, full insert sequence.
GenBankCT8286840.0CT828684.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCSN084I04, full insert sequence.
GenBankCT8325770.0CT832577.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCFA333Z37, full insert sequence.
GenBankFJ7509320.0FJ750932.1 Oryza sativa clone KCS005G02 MADS-box transcription factor mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015647414.11e-107protein YABBY 1 isoform X1
SwissprotQ7XIM71e-108YAB1_ORYSJ; Protein YABBY 1
TrEMBLA0A0E0E7N01e-105A0A0E0E7N0_9ORYZ; Uncharacterized protein
TrEMBLA0A0E0Q4A41e-105A0A0E0Q4A4_ORYRU; Uncharacterized protein
TrEMBLD3U2G41e-105D3U2G4_ORYSA; MADS-box transcription factor
STRINGOMERI07G02380.11e-106(Oryza meridionalis)
STRINGORUFI07G03450.11e-106(Oryza rufipogon)
STRINGOS07T0160100-021e-106(Oryza sativa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G08465.14e-47YABBY family protein
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Ohmori Y,Abiko M,Horibata A,Hirano HY
    A transposon, Ping, is integrated into intron 4 of the DROOPING LEAF gene of rice, weakly reducing its expression and causing a mild drooping leaf phenotype.
    Plant Cell Physiol., 2008. 49(8): p. 1176-84
    [PMID:18593744]
  3. Ohmori Y,Toriba T,Nakamura H,Ichikawa H,Hirano HY
    Temporal and spatial regulation of DROOPING LEAF gene expression that promotes midrib formation in rice.
    Plant J., 2011. 65(1): p. 77-86
    [PMID:21175891]
  4. Li H, et al.
    Rice MADS6 interacts with the floral homeotic genes SUPERWOMAN1, MADS3, MADS58, MADS13, and DROOPING LEAF in specifying floral organ identities and meristem fate.
    Plant Cell, 2011. 23(7): p. 2536-52
    [PMID:21784949]
  5. Tanaka W, et al.
    The YABBY gene TONGARI-BOUSHI1 is involved in lateral organ development and maintenance of meristem organization in the rice spikelet.
    Plant Cell, 2012. 24(1): p. 80-95
    [PMID:22286138]
  6. Yang C,Ma Y,Li J
    The rice YABBY4 gene regulates plant growth and development through modulating the gibberellin pathway.
    J. Exp. Bot., 2016. 67(18): p. 5545-5556
    [PMID:27578842]