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 Cucsa.124180.3
Common NameCsa_6G439960, LOC101212961
Organism
Cucumis sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis
Family NF-YA
Protein Properties Length: 337aa    MW: 36603.9 Da    PI: 6.9903
Description NF-YA family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cucsa.124180.3genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1CBFB_NFYA102.34.6e-32162218158
       CBFB_NFYA   1 deplYVNaKQyqrIlkRRqkRakleeekkldeksrkpylheSRhkhAlrRpRgsgGrF 58 
                     +ep++VNaKQyq+Il+RRq+Rak+e e+kl +k rkpylheSRh+hA+rR+RgsgGrF
  Cucsa.124180.3 162 QEPVFVNAKQYQGILRRRQARAKAEVENKL-IKVRKPYLHESRHQHAMRRARGSGGRF 218
                     69****************************.**************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005212.3E-35160221IPR001289Nuclear transcription factor Y subunit A
PROSITE profilePS5115236.157161221IPR001289Nuclear transcription factor Y subunit A
PfamPF020455.2E-28163218IPR001289Nuclear transcription factor Y subunit A
PRINTSPR006161.3E-23164186IPR001289Nuclear transcription factor Y subunit A
PROSITE patternPS006860166186IPR018362CCAAT-binding factor, conserved site
PRINTSPR006161.3E-23195218IPR001289Nuclear transcription factor Y subunit A
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010262Biological Processsomatic embryogenesis
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
GO:0055046Biological Processmicrogametogenesis
GO:0016602Cellular ComponentCCAAT-binding factor complex
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 337 aa     Download sequence    Send to blast
MQSKSKSVNQ LESEPPNMQQ TSSFSEPWWR SIGYNHISPP AAGGNVSNST SLECTNGASE  60
SNDGQSMSND DLNEEDDDET TKDSHASFGQ VQHNCQHAVS AAPIVHSGCI TQPPQLELAC  120
ASNPYQDPYY AGVMAAYGHQ PGYPPFLGMP HARMALPLEV TQEPVFVNAK QYQGILRRRQ  180
ARAKAEVENK LIKVRKPYLH ESRHQHAMRR ARGSGGRFAK KNETNSLGST MKDKDSGSGQ  240
AISSHSAGSS GSDAAPCALA ETWNSSNGQQ ESRTQLHEAY EARSYMNGSS QFHNYSSFQA  300
SSYGLRSGER GDDGDCSGQQ RSISENQAAQ RRLAIK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4awl_A8e-20161226166NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT ALPHA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtStimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters. {ECO:0000250}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankLN6818420.0LN681842.1 Cucumis melo genomic scaffold, anchoredscaffold00022.
GenBankLN7132590.0LN713259.1 Cucumis melo genomic chromosome, chr_5.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_011657643.10.0PREDICTED: nuclear transcription factor Y subunit A-1-like isoform X2
RefseqXP_011657644.10.0PREDICTED: nuclear transcription factor Y subunit A-1-like isoform X2
SwissprotQ9LXV59e-71NFYA1_ARATH; Nuclear transcription factor Y subunit A-1
TrEMBLA0A0A0KEL90.0A0A0A0KEL9_CUCSA; Uncharacterized protein
STRINGXP_004156306.10.0(Cucumis sativus)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G12840.43e-69nuclear factor Y, subunit A1
Publications ? help Back to Top
  1. Ren Y, et al.
    An integrated genetic and cytogenetic map of the cucumber genome.
    PLoS ONE, 2009. 4(6): p. e5795
    [PMID:19495411]
  2. Guo S, et al.
    Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types.
    BMC Genomics, 2010. 11: p. 384
    [PMID:20565788]
  3. Li Z, et al.
    RNA-Seq improves annotation of protein-coding genes in the cucumber genome.
    BMC Genomics, 2011. 12: p. 540
    [PMID:22047402]
  4. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  5. Siriwardana CL, et al.
    NUCLEAR FACTOR Y, Subunit A (NF-YA) Proteins Positively Regulate Flowering and Act Through FLOWERING LOCUS T.
    PLoS Genet., 2016. 12(12): p. e1006496
    [PMID:27977687]
  6. Zhao H, et al.
    The Arabidopsis thaliana Nuclear Factor Y Transcription Factors.
    Front Plant Sci, 2016. 7: p. 2045
    [PMID:28119722]