PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID ONIVA03G43680.1
Organism
Oryza nivara
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
Family NF-YC
Protein Properties Length: 250aa    MW: 27750.1 Da    PI: 4.5964
Description NF-YC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ONIVA03G43680.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YC175.55.2e-55791821101
            NF-YC   1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifdf 91 
                      ql++fw+++   ie++tdfknh+lPlarikki+kadedv+misaeaPv+++kace+fileltlrsw+h+eenkrrtl+k+diaaa+trtd++df
  ONIVA03G43680.1  79 QLQQFWAERladIEQTTDFKNHSLPLARIKKIMKADEDVRMISAEAPVIFAKACEIFILELTLRSWMHTEENKRRTLQKNDIAAAITRTDMYDF 172
                      89*****98888********************************************************************************** PP

            NF-YC  92 lvdivprdel 101
                      lvdivprd+l
  ONIVA03G43680.1 173 LVDIVPRDDL 182
                      ********87 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF471139.56E-3642173IPR009072Histone-fold
Gene3DG3DSA:1.10.20.101.9E-3793165IPR009072Histone-fold
PfamPF008085.0E-21101164IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 250 aa     Download sequence    Send to blast
MEPSSQPQPA IGVVAGGSQV YPAYPPAATV PTAPAVIPAG SQPAPSFPAN PDQLSAQHQL  60
VYQQAQQFHQ QLQQQQQRQL QQFWAERLAD IEQTTDFKNH SLPLARIKKI MKADEDVRMI  120
SAEAPVIFAK ACEIFILELT LRSWMHTEEN KRRTLQKNDI AAAITRTDMY DFLVDIVPRD  180
DLKEEGVGLP RAGLPPLGVP ADSYPYGYYV PQQQVPGAGI AYGGQQGHPG YLWQDPQEQQ  240
EEPPAEQQSD
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5g49_B3e-5790179695NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1151157RRTLQKN
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the regulation of flowering time under long day (LD) conditions. Functions as repressor of flowering, independently of HD1 and GHD7. Controls flowering time by negatively regulating the expression of EHD1 and HD3A (PubMed:26542958). Component of the NF-Y/HAP transcription factor complex (By similarity). {ECO:0000250, ECO:0000269|PubMed:26542958}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Circadian-regulation under long day (LD) conditions. Expression increases in the middle of daytime, peaks around the end of the light period and gradually decreases during the dark period and beginning of daylight. {ECO:0000269|PubMed:26542958}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankCP0126140.0CP012614.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 6 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015644345.11e-180nuclear transcription factor Y subunit C-4
RefseqXP_025882178.11e-180nuclear transcription factor Y subunit C-4
SwissprotQ655V50.0NFYC4_ORYSJ; Nuclear transcription factor Y subunit C-4
TrEMBLA0A0E0GWS00.0A0A0E0GWS0_ORYNI; Uncharacterized protein
TrEMBLI1Q4G20.0I1Q4G2_ORYGL; Uncharacterized protein
STRINGONIVA03G43680.10.0(Oryza nivara)
STRINGORGLA06G0202500.10.0(Oryza glaberrima)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP27033790
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G56170.21e-66nuclear 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]