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_Os09g30310.1
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 NF-YC
Protein Properties Length: 198aa    MW: 21050 Da    PI: 5.2621
Description NF-YC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os09g30310.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YC169.83.1e-53591621101
             NF-YC   1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifd 90 
                       ql++fw++q   ie +tdfknh+lPlarikki+kadedv+mi+aeaPv++++ace+filelt r w haeenkrrtl+ksdiaaa++rt++fd
  LOC_Os09g30310.1  59 QLQMFWAEQyreIEATTDFKNHNLPLARIKKIMKADEDVRMIAAEAPVVFARACEMFILELTHRGWAHAEENKRRTLQKSDIAAAIARTEVFD 151
                       89******99999******************************************************************************** PP

             NF-YC  91 flvdivprdel 101
                       flvdivprd+ 
  LOC_Os09g30310.1 152 FLVDIVPRDDA 162
                       ********986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF471137.88E-3158153IPR009072Histone-fold
PfamPF008083.5E-2181144IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
Gene3DG3DSA:1.10.20.101.0E-3682159IPR009072Histone-fold
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 198 aa     Download sequence    Send to blast
MDPTKSSTPP PVMGAPVGFP PGAYPPPPPA GAAAAAYAQQ LYAPPAAAAA QQAAAAQQQL  60
QMFWAEQYRE IEATTDFKNH NLPLARIKKI MKADEDVRMI AAEAPVVFAR ACEMFILELT  120
HRGWAHAEEN KRRTLQKSDI AAAIARTEVF DFLVDIVPRD DAKDADAAAA AAAAGIPRPA  180
AGVPATDPLA YYYVPQQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5g49_B3e-5667159395NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1131137RRTLQKS
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.544330.0panicle| root| stem
Functional Description ? help Back to Top
Source Description
UniProtComponent of the NF-Y/HAP transcription factor complex. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os09g30310.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs09g30310
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0053920.0AP005392.3 Oryza sativa Japonica Group genomic DNA, chromosome 9, PAC clone:P0463D04.
GenBankAP0056330.0AP005633.3 Oryza sativa Japonica Group genomic DNA, chromosome 9, PAC clone:P0463G11.
GenBankAP0149650.0AP014965.1 Oryza sativa Japonica Group DNA, chromosome 9, cultivar: Nipponbare, complete sequence.
GenBankCP0126170.0CP012617.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 9 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015611933.11e-138nuclear transcription factor Y subunit C-6-like
SwissprotQ9XE332e-76NFYC6_ORYSJ; Nuclear transcription factor Y subunit C-6
TrEMBLA2Z2F01e-134A2Z2F0_ORYSI; Uncharacterized protein
STRINGORUFI09G15160.11e-112(Oryza rufipogon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP38563676
Representative plantOGRP31517117
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G56170.21e-54nuclear factor Y, subunit C2
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. Kim SK, et al.
    OsNF-YC2 and OsNF-YC4 proteins inhibit flowering under long-day conditions in rice.
    Planta, 2016. 243(3): p. 563-76
    [PMID:26542958]