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_Os07g06620.2
Common NameOsJ_23161
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: 206aa    MW: 23325.5 Da    PI: 11.2851
Description YABBY family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os07g06620.2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1YABBY217.44.6e-6711461159
             YABBY   1 advfssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakasqllaaeshldeslkeelleelkveeenlksnvekeesas 93 
                       ++v+++se+vCyv+Cn+Cntil+v+vP+++++++vtvrCGhCt++ls++la ++q++++++h        ++++++++++n+ s+++++++++
  LOC_Os07g06620.2   1 MSVQFTSEHVCYVNCNYCNTILVVNVPNNCSYNIVTVRCGHCTMVLSMDLAPFHQARTVQDH--------QVQNRGFQGNNFGSYDIASRNQR 85 
                       57999********************************************************9........99********************* PP

             YABBY  94 tsvsseklsenedeevprvppvirPPekrqrvPsaynrfikeeiqrikasnPdishreafsaaakn 159
                       ts++++ +++++++ +p     irPPekrqrvPsaynrfikeeiqrik+snP+ishreafsaaakn
  LOC_Os07g06620.2  86 TSTAMYPMPTSQQQVSP-----IRPPEKRQRVPSAYNRFIKEEIQRIKTSNPEISHREAFSAAAKN 146
                       *************9999.....9******************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046903.7E-556146IPR006780YABBY protein
SuperFamilySSF470951.07E-691146IPR009071High mobility group box domain
CDDcd000849.05E-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: 206 aa     Download sequence    Send to blast
MSVQFTSEHV CYVNCNYCNT ILVVNVPNNC SYNIVTVRCG HCTMVLSMDL APFHQARTVQ  60
DHQVQNRGFQ GNNFGSYDIA SRNQRTSTAM YPMPTSQQQV SPIRPPEKRQ RVPSAYNRFI  120
KEEIQRIKTS NPEISHREAF SAAAKNRRRR RRRRRQQLIA AARPAGRPPI AGVHAGARRR  180
PVENARAGGT TTIYYYRVCP SLFAA*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1146154RRRRRRRRR
2147154RRRRRRRR
3148154RRRRRRR
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.747071e-32flower| panicle| seed| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO379905751e-32
Expression AtlasB9FVL0-
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_Os07g06620.2
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
GenBankCT8286840.0CT828684.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCSN084I04, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015647414.11e-105protein YABBY 1 isoform X1
SwissprotQ7XIM71e-106YAB1_ORYSJ; Protein YABBY 1
TrEMBLB9FVL01e-130B9FVL0_ORYSJ; Uncharacterized protein
STRINGOMERI07G02380.11e-105(Oryza meridionalis)
STRINGORUFI07G03450.11e-105(Oryza rufipogon)
STRINGOS07T0160100-021e-105(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP139437121
Representative plantOGRP1408544
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G08465.14e-41YABBY 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]