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 mrna18500.1-v1.0-hybrid
Organism
Fragaria vesca
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Rosoideae; Potentilleae; Fragariinae; Fragaria
Family NF-YC
Protein Properties Length: 285aa    MW: 32032.1 Da    PI: 6.4324
Description NF-YC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
mrna18500.1-v1.0-hybridgenomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YC175.74.8e-55951991102
                    NF-YC   1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaav 83 
                              ql++fw +q   ie++tdfknh+lPlarikki+kadedv+misaeaPv+++kace+fileltlrsw+h+eenkrrtl+k+diaaa+
  mrna18500.1-v1.0-hybrid  95 QLQVFWGNQmqdIEQTTDFKNHSLPLARIKKIMKADEDVRMISAEAPVIFAKACEIFILELTLRSWIHTEENKRRTLQKNDIAAAI 180
                              89*****9988889************************************************************************ PP

                    NF-YC  84 trtdifdflvdivprdelk 102
                              +rtd+fdflvdi+prdelk
  mrna18500.1-v1.0-hybrid 181 SRTDVFDFLVDIIPRDELK 199
                              ****************875 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF471132.18E-3376189IPR009072Histone-fold
PfamPF008085.0E-21117180IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
Gene3DG3DSA:1.10.20.104.0E-37118195IPR009072Histone-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: 285 aa     Download sequence    Send to blast
MDHSEQTQQQ LQQQQQQQHH HQQQPPVVGV VAGSGQMSYA PPSYQTAPMV ASGTPTVAIP  60
SPTQPPPAFS NSPHQIAYQQ AHHFHNQQQQ QQQQQLQVFW GNQMQDIEQT TDFKNHSLPL  120
ARIKKIMKAD EDVRMISAEA PVIFAKACEI FILELTLRSW IHTEENKRRT LQKNDIAAAI  180
SRTDVFDFLV DIIPRDELKE EGLGVTKANI PVVGSAADLP YYYVPPQHPV GAPGMIMGKP  240
VDQVTMYGAQ QPRPPMAFMP WTQSQPQQPL PQQQQQTQQQ QTDN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5g49_B2e-57103195395NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1167173RRTLQKN
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapmrna18500.1-v1.0-hybrid
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_004306566.10.0PREDICTED: nuclear transcription factor Y subunit C-2
RefseqXP_004306567.10.0PREDICTED: nuclear transcription factor Y subunit C-2
RefseqXP_011468848.10.0PREDICTED: nuclear transcription factor Y subunit C-2
SwissprotQ655V52e-81NFYC4_ORYSJ; Nuclear transcription factor Y subunit C-4
TrEMBLA0A2P6Q8921e-154A0A2P6Q892_ROSCH; Putative transcription factor Hap3/NF-YB family
STRINGXP_004306566.10.0(Fragaria vesca)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF123722836
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G56170.22e-78nuclear 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]