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 orange1.1g024238m
Common NameCISIN_1g024265mg, LOC102628121
Organism
Citrus sinensis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus
Family NF-YC
Protein Properties Length: 271aa    MW: 30249.1 Da    PI: 6.2277
Description NF-YC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
orange1.1g024238mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YC178.37.1e-56841881102
              NF-YC   1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdif 89 
                        ql++fw++q   ie+++dfknh+lPlarikki+kadedv+misaeaPv+++kace+fileltlrsw+h+eenkrrtl+k+diaaa++rtd+f
  orange1.1g024238m  84 QLQMFWSNQmqeIEQTADFKNHSLPLARIKKIMKADEDVRMISAEAPVIFAKACEMFILELTLRSWIHTEENKRRTLQKNDIAAAISRTDVF 175
                        89******988889****************************************************************************** PP

              NF-YC  90 dflvdivprdelk 102
                        dflvdi+prdelk
  orange1.1g024238m 176 DFLVDIIPRDELK 188
                        **********975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF471131.63E-3463178IPR009072Histone-fold
PfamPF008082.4E-21106169IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
Gene3DG3DSA:1.10.20.102.5E-37107184IPR009072Histone-fold
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0005737Cellular Componentcytoplasm
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 271 aa     Download sequence    Send to blast
MDQSDQTQQQ QQQQQQPVMG VVAGAGQMSY PPYHTAPLVA SGTPAVAVPS PTQPPSTFAS  60
SPHQLAYQQA QHFHHQQQQQ QQQQLQMFWS NQMQEIEQTA DFKNHSLPLA RIKKIMKADE  120
DVRMISAEAP VIFAKACEMF ILELTLRSWI HTEENKRRTL QKNDIAAAIS RTDVFDFLVD  180
IIPRDELKEE GLGVTKGALP VVGSPGDMPL YYVPPQHPVG HTGMIMGKPV DQAALYSGQQ  240
PRPPVAFMPW PQSQSQAQQQ QQPQQQQNDP *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5g49_B2e-5892184395NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1156162RRTLQKN
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Csi.12150.0flower| fruit| stem
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006422281.10.0nuclear transcription factor Y subunit C-2
RefseqXP_006493757.10.0nuclear transcription factor Y subunit C-2
RefseqXP_006493758.10.0nuclear transcription factor Y subunit C-2
RefseqXP_024036481.10.0nuclear transcription factor Y subunit C-2
RefseqXP_024949451.10.0nuclear transcription factor Y subunit C-2
SwissprotQ655V53e-81NFYC4_ORYSJ; Nuclear transcription factor Y subunit C-4
TrEMBLA0A067F2I10.0A0A067F2I1_CITSI; Uncharacterized protein
TrEMBLV4SET80.0V4SET8_9ROSI; Uncharacterized protein
STRINGXP_006493757.10.0(Citrus sinensis)
STRINGXP_006422281.10.0(Citrus clementina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM47828160
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G56170.21e-80nuclear 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]