The protein encoded by this gene is one subunit of a trimeric complex, forming a highly conserved transcription factor that binds to CCAAT motifs in the promoter regions in a variety of genes. Subunit A associates with a tight dimer composed of the B and C subunits, resulting in a trimer that binds to DNA with high specificity and affinity. The sequence specific interactions of... See more...

Aliases for NFYA Gene

Aliases for NFYA Gene

  • Nuclear Transcription Factor Y Subunit Alpha 2 3 4 5
  • NF-YA 2 3 4
  • Nuclear Transcription Factor Y Subunit A 3 4
  • Nuclear Transcription Factor Y, Alpha 2 3
  • CBF-B 2 3
  • HAP2 2 3
  • CCAAT-Binding Transcription Factor Subunit B 3
  • CAAT-Box DNA Binding Protein Subunit A 3
  • CAAT Box DNA-Binding Protein Subunit A 4
  • Transcription Factor NF-Y, A Subunit 3
  • HAP2 CCAAT-Binding Protein 3
  • CBF-A 3
  • NFYA 5

External Ids for NFYA Gene

Previous GeneCards Identifiers for NFYA Gene

  • GC06P041042
  • GC06P041087
  • GC06P041148
  • GC06P041040
  • GC06P040758
  • GC06P042924
  • GC06P043252
  • GC06P043410
  • GC06P046092
  • GC06P041074
  • GC06P041309
  • GC06P041321
  • GC06P041983
  • GC06P042629
  • GC06P047497
  • GC06P049557

Summaries for NFYA Gene

Entrez Gene Summary for NFYA Gene

  • The protein encoded by this gene is one subunit of a trimeric complex, forming a highly conserved transcription factor that binds to CCAAT motifs in the promoter regions in a variety of genes. Subunit A associates with a tight dimer composed of the B and C subunits, resulting in a trimer that binds to DNA with high specificity and affinity. The sequence specific interactions of the complex are made by the A subunit, suggesting a role as the regulatory subunit. In addition, there is evidence of post-transcriptional regulation in this gene product, either by protein degradation or control of translation. Further regulation is represented by alternative splicing in the glutamine-rich activation domain, with clear tissue-specific preferences for the two isoforms. [provided by RefSeq, Jul 2008]

GeneCards Summary for NFYA Gene

NFYA (Nuclear Transcription Factor Y Subunit Alpha) is a Protein Coding gene. Among its related pathways are Unfolded Protein Response (UPR) and Regulation of cholesterol biosynthesis by SREBP (SREBF). Gene Ontology (GO) annotations related to this gene include DNA-binding transcription factor activity and transcription regulatory region DNA binding.

UniProtKB/Swiss-Prot Summary for NFYA Gene

  • Component of the sequence-specific heterotrimeric transcription factor (NF-Y) which specifically recognizes a 5'-CCAAT-3' box motif found in the promoters of its target genes. NF-Y can function as both an activator and a repressor, depending on its interacting cofactors. NF-YA positively regulates the transcription of the core clock component ARNTL/BMAL1.

Gene Wiki entry for NFYA Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for NFYA Gene

Genomics for NFYA Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for NFYA Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH06J041070 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 250.7 +0.6 621 5.9 BCLAF1 SP1 ZNF207 MYC NCOR1 IKZF1 ZNF600 SIX5 ZNF592 KLF9 NFYA lnc-UNC5CL-5 OARD1 ADCY10P1 USP49 TSPO2 UNC5CL TAF8 APOBEC2 lnc-OARD1-1
GH06J040587 Promoter/Enhancer 1.9 EPDnew Ensembl ENCODE CraniofacialAtlas 10.4 -485.4 -485444 1.8 ZNF600 ZNF223 POLR2A ZIC2 ZBTB10 ETS1 ZNF639 ZNF341 ZEB1 KLF7 LRFN2 NFYA HSALNG0049962 UNC5CL
GH06J041198 Promoter/Enhancer 1.7 EPDnew Ensembl ENCODE dbSUPER 10.5 +128.5 128485 6.2 NCOR1 IKZF1 ZNF592 NFIC CTCF MBD2 ARNT IRF2 GABPA NBN TREML2 TREML4 TREML3P TREM2 USP49 ADCY10P1 NFYA TREML5P TREML1 ENSG00000218809
GH06J041455 Enhancer 1.3 ENCODE CraniofacialAtlas dbSUPER 9.8 +383.6 383584 2.6 ZNF600 SSRP1 ATF2 CEBPA ZIC2 CHD4 FOXA1 TRIM22 FEZF1 ZNF341 MED20 TAF8 OARD1 FOXP4 FOXP4-AS1 TRERF1 NFYA ENSG00000124593 NONHSAG043766.2 LINC01276
GH06J041278 Promoter/Enhancer 1.7 FANTOM5 Ensembl ENCODE dbSUPER 7.6 +206.3 206267 0.8 ZNF654 NCOR1 MYC IKZF1 NFIC MXD4 NONO CTCF REST TRIM22 TREM1 USP49 NFYA TFEB TREML2 TREML4 lnc-TREML2-2 lnc-TREML2-4
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around NFYA on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for NFYA

Top Transcription factor binding sites by QIAGEN in the NFYA gene promoter:
  • CUTL1
  • GATA-1
  • p53

Genomic Locations for NFYA Gene

Latest Assembly
chr6:41,072,945-41,102,403
(GRCh38/hg38)
Size:
29,459 bases
Orientation:
Plus strand

Previous Assembly
chr6:41,040,713-41,070,142
(GRCh37/hg19 by Entrez Gene)
Size:
29,430 bases
Orientation:
Plus strand

chr6:41,040,684-41,067,715
(GRCh37/hg19 by Ensembl)
Size:
27,032 bases
Orientation:
Plus strand

Genomic View for NFYA Gene

Genes around NFYA on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NFYA Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NFYA Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NFYA Gene

Proteins for NFYA Gene

  • Protein details for NFYA Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P23511-NFYA_HUMAN
    Recommended name:
    Nuclear transcription factor Y subunit alpha
    Protein Accession:
    P23511
    Secondary Accessions:
    • Q8IXU0

    Protein attributes for NFYA Gene

    Size:
    347 amino acids
    Molecular mass:
    36877 Da
    Quaternary structure:
    • Heterotrimeric transcription factor composed of three components, NF-YA, NF-YB and NF-YC. NF-YB and NF-YC must interact and dimerize for NF-YA association and DNA binding. Interacts with SP1; the interaction is inhibited by glycosylation of SP1. Interacts with ZHX1. Interacts (via N-terminus) with ZHX2 (via homeobox domain). Interacts with ZFX3.

    Three dimensional structures from OCA and Proteopedia for NFYA Gene

    Alternative splice isoforms for NFYA Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for NFYA Gene

Post-translational modifications for NFYA Gene

  • Ubiquitination at Lys270
  • Modification sites at PhosphoSitePlus

Other Protein References for NFYA Gene

Antibodies for research

  • Abcam antibodies for NFYA

No data available for DME Specific Peptides for NFYA Gene

Domains & Families for NFYA Gene

Gene Families for NFYA Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Transcription factors

Protein Domains for NFYA Gene

InterPro:
Blocks:
  • CCAAT-binding transcription factor, subunit B

Suggested Antigen Peptide Sequences for NFYA Gene

GenScript: Design optimal peptide antigens:
  • Nuclear transcription factor Y subunit A (NFYA_HUMAN)

Graphical View of Domain Structure for InterPro Entry

P23511

UniProtKB/Swiss-Prot:

NFYA_HUMAN :
  • Belongs to the NFYA/HAP2 subunit family.
Family:
  • Belongs to the NFYA/HAP2 subunit family.
genes like me logo Genes that share domains with NFYA: view

Function for NFYA Gene

Molecular function for NFYA Gene

UniProtKB/Swiss-Prot Function:
Component of the sequence-specific heterotrimeric transcription factor (NF-Y) which specifically recognizes a 5'-CCAAT-3' box motif found in the promoters of its target genes. NF-Y can function as both an activator and a repressor, depending on its interacting cofactors. NF-YA positively regulates the transcription of the core clock component ARNTL/BMAL1.
GENATLAS Biochemistry:
nuclear transcription factor NF-Y,A subunit,binding the CCAAT and the inverted CCAT box,Y box (ATGG) motifs in a variety of promoters,interacting with P/CAF

Phenotypes From GWAS Catalog for NFYA Gene

Gene Ontology (GO) - Molecular Function for NFYA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000976 contributes_to transcription regulatory region sequence-specific DNA binding IDA 11256944
GO:0000978 RNA polymerase II proximal promoter sequence-specific DNA binding ISS --
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific ISA --
GO:0003677 DNA binding IDA 15243141
GO:0003700 DNA-binding transcription factor activity TAS 1774067
genes like me logo Genes that share ontologies with NFYA: view
genes like me logo Genes that share phenotypes with NFYA: view

Animal Models for NFYA Gene

MGI Knock Outs for NFYA:
  • Nfya Nfya<tm1.1Mait>

Transcription Factor Targets for NFYA Gene

Selected GeneGlobe predicted Target genes for NFYA
Targeted motifs for NFYA Gene
HOMER Transcription Factor Regulatory Elements motif NFYA
  • Consensus sequence: AGCCAATCGG Submotif: canonical Cell Type: NA

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for NFYA

No data available for Enzyme Numbers (IUBMB) and Human Phenotype Ontology for NFYA Gene

Localization for NFYA Gene

Subcellular locations from UniProtKB/Swiss-Prot for NFYA Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for NFYA gene
Compartment Confidence
nucleus 5
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1
peroxisome 1
endoplasmic reticulum 1
endosome 1
cytosol 1
lysosome 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for NFYA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000785 chromatin ISA --
GO:0005634 nucleus TAS,IDA 15243141
GO:0005654 nucleoplasm TAS --
GO:0016602 CCAAT-binding factor complex IBA,IDA 15243141
GO:0032993 protein-DNA complex IDA 11256944
genes like me logo Genes that share ontologies with NFYA: view

Pathways & Interactions for NFYA Gene

genes like me logo Genes that share pathways with NFYA: view

SIGNOR curated interactions for NFYA Gene

Activates:
Is activated by:

Gene Ontology (GO) - Biological Process for NFYA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006355 regulation of transcription, DNA-templated IDA 15243141
GO:0006357 regulation of transcription by RNA polymerase II IBA 21873635
GO:0006366 transcription by RNA polymerase II TAS 2000400
GO:0045540 regulation of cholesterol biosynthetic process TAS --
GO:0045893 positive regulation of transcription, DNA-templated ISS --
genes like me logo Genes that share ontologies with NFYA: view

Drugs & Compounds for NFYA Gene

(2) Drugs for NFYA Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(2) Additional Compounds for NFYA Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with NFYA: view

Transcripts for NFYA Gene

mRNA/cDNA for NFYA Gene

2 REFSEQ mRNAs :
12 NCBI additional mRNA sequence :
2 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for NFYA

Alternative Splicing Database (ASD) splice patterns (SP) for NFYA Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b ^ 8a · 8b ^ 9 ^ 10 ^ 11a · 11b · 11c
SP1: -
SP2: -
SP3: - -
SP4: -
SP5: - - - -

Relevant External Links for NFYA Gene

GeneLoc Exon Structure for
NFYA

Expression for NFYA Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for NFYA Gene

Protein differential expression in normal tissues from HIPED for NFYA Gene

This gene is overexpressed in Pancreas (15.2), CD8 Tcells (8.2), Blymphocyte (7.7), Peripheral blood mononuclear cells (7.4), and Retina (6.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for NFYA Gene



Protein tissue co-expression partners for NFYA Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for NFYA

SOURCE GeneReport for Unigene cluster for NFYA Gene:

Hs.10441

Evidence on tissue expression from TISSUES for NFYA Gene

  • Liver(4.5)
  • Nervous system(3.4)
  • Skin(2.2)
  • Intestine(2.2)
  • Bone marrow(2)
  • Blood(2)
genes like me logo Genes that share expression patterns with NFYA: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for NFYA Gene

Orthologs for NFYA Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for NFYA Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia NFYA 29 30
  • 99.52 (n)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia NFYA 30
  • 96 (a)
OneToOne
Dog
(Canis familiaris)
Mammalia NFYA 29 30
  • 95.1 (n)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia NFYA 30
  • 95 (a)
OneToOne
Cow
(Bos Taurus)
Mammalia NFYA 29 30
  • 93.65 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia Nfya 29 16 30
  • 91.45 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Nfya 29
  • 91.3 (n)
Chicken
(Gallus gallus)
Aves NFYA 29 30
  • 82.6 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia NFYA 30
  • 97 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia nfya 29
  • 78.2 (n)
MGC76011 29
African clawed frog
(Xenopus laevis)
Amphibia Xl.418 29
Zebrafish
(Danio rerio)
Actinopterygii nfya 29 30
  • 79 (a)
OneToMany
nfyal 29 30
  • 75 (n)
OneToMany
Fruit Fly
(Drosophila melanogaster)
Insecta Nf-YA 30
  • 27 (a)
OneToOne
Worm
(Caenorhabditis elegans)
Secernentea nfya-2 30
  • 21 (a)
OneToMany
nfya-1 30
  • 15 (a)
OneToMany
Baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes HAP2 30 32
  • 28 (a)
OneToOne
Sea Squirt
(Ciona savignyi)
Ascidiacea -- 30
  • 34 (a)
OneToOne
Species where no ortholog for NFYA was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)

Evolution for NFYA Gene

ENSEMBL:
Gene Tree for NFYA (if available)
TreeFam:
Gene Tree for NFYA (if available)
Aminode:
Evolutionary constrained regions (ECRs) for NFYA: view image
Alliance of Genome Resources:
Additional Orthologs for NFYA

Paralogs for NFYA Gene

No data available for Paralogs for NFYA Gene

Variants for NFYA Gene

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for NFYA Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for NFYA Gene

Variant ID Type Subtype PubMed ID
nsv1117437 CNV tandem duplication 24896259
nsv602970 CNV gain 21841781

Variation tolerance for NFYA Gene

Residual Variation Intolerance Score: 23.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.65; 13.92% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for NFYA Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
NFYA
Leiden Open Variation Database (LOVD)
NFYA

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for NFYA Gene

Disorders for NFYA Gene

Additional Disease Information for NFYA

Human Genome Epidemiology Navigator
(HuGE)
Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform

No disorders were found for NFYA Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for NFYA Gene

Publications for NFYA Gene

  1. O-GlcNAcylation of Sp1 interrupts Sp1 interaction with NF-Y. (PMID: 19302979) Lim K … Chang HI (Biochemical and biophysical research communications 2009) 3 4 22
  2. Analysis of zinc-fingers and homeoboxes (ZHX)-1-interacting proteins: molecular cloning and characterization of a member of the ZHX family, ZHX3. (PMID: 12659632) Yamada K … Miyamoto K (The Biochemical journal 2003) 3 4 22
  3. Sequence-specific transcription factor NF-Y displays histone-like DNA binding and H2B-like ubiquitination. (PMID: 23332751) Nardini M … Mantovani R (Cell 2013) 3 4
  4. Gain of function of mutant p53: the mutant p53/NF-Y protein complex reveals an aberrant transcriptional mechanism of cell cycle regulation. (PMID: 16959611) Di Agostino S … Piaggio G (Cancer cell 2006) 3 22
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4

Products for NFYA Gene

Sources for NFYA Gene