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 LOC_Os08g38780.1
Common NameB1142B04.32, LOC4345928, Os08g0496500, OsHAP5D, OSNPB_080496500, P0026F07.3
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 NF-YC
Protein Properties Length: 206aa    MW: 21909 Da    PI: 5.9297
Description NF-YC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os08g38780.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YC170.61.8e-53681711101
             NF-YC   1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifd 90 
                       ql++fw++q   ie++tdfknh+lPlarikki+kadedv+mi+aeaPv++++ace+filelt r w haeenkrrtl+ksdiaaa++rt++fd
  LOC_Os08g38780.1  68 QLQNFWAEQyreIEHTTDFKNHNLPLARIKKIMKADEDVRMIAAEAPVVFARACEMFILELTHRGWAHAEENKRRTLQKSDIAAAIARTEVFD 160
                       89******99999******************************************************************************** PP

             NF-YC  91 flvdivprdel 101
                       flvdivprde 
  LOC_Os08g38780.1 161 FLVDIVPRDEA 171
                       *********86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF471134.19E-3163162IPR009072Histone-fold
PfamPF008083.8E-2190153IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
Gene3DG3DSA:1.10.20.101.1E-3691168IPR009072Histone-fold
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0046982Molecular Functionprotein heterodimerization activity
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0025281anatomypollen
PO:0001015developmental stageK second mitotic division stage
PO:0007130developmental stagesporophyte reproductive stage
Sequence ? help Back to Top
Protein Sequence    Length: 206 aa     Download sequence    Send to blast
MEPKSTTPPP PPPPPVLGAP VPYPPAGAYP PPVGPYAHAP PLYAPPPPAA AAASAAATAA  60
SQQAAAAQLQ NFWAEQYREI EHTTDFKNHN LPLARIKKIM KADEDVRMIA AEAPVVFARA  120
CEMFILELTH RGWAHAEENK RRTLQKSDIA AAIARTEVFD FLVDIVPRDE AKDAEAAAAV  180
AAGIPHPAAG LPATDPMAYY YVQPQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5g49_B1e-5676168395NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1140146RRTLQKS
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.556610.0panicle| seed
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329937190.0
Expression AtlasQ9XE33-
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_Os08g38780.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs08g38780
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB2880440.0AB288044.1 Oryza sativa Japonica Group OsHAP5D gene for HAP5 subunit of HAP complex, complete cds.
GenBankAK1085100.0AK108510.1 Oryza sativa Japonica Group cDNA clone:002-144-A03, full insert sequence.
GenBankAP0003640.0AP000364.1 Oryza sativa Japonica Group genomic DNA, chromosome 8, PAC clone:P0026F07.
GenBankAP0051480.0AP005148.3 Oryza sativa Japonica Group genomic DNA, chromosome 8, BAC clone:B1142B04.
GenBankAP0149640.0AP014964.1 Oryza sativa Japonica Group DNA, chromosome 8, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015648381.11e-143nuclear transcription factor Y subunit C-6
SwissprotQ9XE331e-144NFYC6_ORYSJ; Nuclear transcription factor Y subunit C-6
TrEMBLA0A0E0IDS01e-142A0A0E0IDS0_ORYNI; Uncharacterized protein
TrEMBLA2YWL91e-142A2YWL9_ORYSI; Uncharacterized protein
TrEMBLI1QJT41e-142I1QJT4_ORYGL; Uncharacterized protein
STRINGOS08T0496500-011e-142(Oryza sativa)
STRINGONIVA08G21210.11e-142(Oryza nivara)
STRINGORGLA08G0168500.11e-142(Oryza glaberrima)
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
AT1G56170.24e-59nuclear 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. Thirumurugan T,Ito Y,Kubo T,Serizawa A,Kurata N
    Identification, characterization and interaction of HAP family genes in rice.
    Mol. Genet. Genomics, 2008. 279(3): p. 279-89
    [PMID:18193457]
  3. 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]