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NFYB nuclear transcription factor Y subunit beta [ Homo sapiens (human) ]

Gene ID: 4801, updated on 27-Nov-2024

Summary

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Official Symbol
NFYBprovided by HGNC
Official Full Name
nuclear transcription factor Y subunit betaprovided by HGNC
Primary source
HGNC:HGNC:7805
See related
Ensembl:ENSG00000120837 MIM:189904; AllianceGenome:HGNC:7805
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
HAP3; CBF-A; CBF-B; NF-YB
Summary
The protein encoded by this gene is one subunit of a trimeric complex, forming a highly conserved transcription factor that binds with high specificity to CCAAT motifs in the promoter regions in a variety of genes. This gene product, subunit B, forms a tight dimer with the C subunit, a prerequisite for subunit A association. The resulting trimer binds to DNA with high specificity and affinity. Subunits B and C each contain a histone-like motif. Observation of the histone nature of these subunits is supported by two types of evidence; protein sequence alignments and experiments with mutants. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in prostate (RPKM 10.4), endometrium (RPKM 9.3) and 25 other tissues See more
Orthologs
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Genomic context

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See NFYB in Genome Data Viewer
Location:
12q23.3
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (104117086..104138210, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (104078781..104099908, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (104510864..104531988, complement)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene glycosyltransferase 8 domain containing 2 Neighboring gene phosphoglycerate mutase 1 (brain) pseudogene Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_23711 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_23714 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4784 Neighboring gene ReSE screen-validated silencer GRCh37_chr12:104458005-104458174 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4785 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4786 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_23722 Neighboring gene host cell factor C2 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_23731 Neighboring gene RNA, 5S ribosomal pseudogene 370 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:104530547-104531140 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:104531141-104531732 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4789 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4790 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_23735 Neighboring gene uncharacterized LOC105369947 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_23741 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_23744 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_23747 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_23754 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_23756 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_23757 Neighboring gene long intergenic non-protein coding RNA 2385

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Unraveling the intricacies of glioblastoma progression and recurrence: insights into the role of NFYB and oxidative phosphorylation at the single-cell level. Liu P, et al. Front Immunol, 2024. PMID 38510250, Free PMC Article
  2. Over-expression of NFYB affects stromal cells reprogramming and predicts worse survival in gastric cancer patients. Lu T, et al. Aging (Albany NY), 2022 Sep 22. PMID 36152055, Free PMC Article
  3. Human thymidine kinase CCAAT-binding protein is NF-Y, whose A subunit expression is serum-dependent in human IMR-90 diploid fibroblasts. Chang ZF, et al. J Biol Chem, 1994 Jul 8. PMID 8027044
  4. Physical and functional interaction between the human T-cell lymphotropic virus type 1 Tax1 protein and the CCAAT binding protein NF-Y. Pise-Masison CA, et al. Mol Cell Biol, 1997 Mar. PMID 9032250, Free PMC Article
  5. NFYB potentiates STK33 activation to promote cisplatin resistance in diffuse large B-cell lymphoma. Feng L, et al. Leuk Res, 2021 Dec. PMID 34536775

See all (91) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Unraveling the intricacies of glioblastoma progression and recurrence: insights into the role of NFYB and oxidative phosphorylation at the single-cell level.
    Title: Unraveling the intricacies of glioblastoma progression and recurrence: insights into the role of NFYB and oxidative phosphorylation at the single-cell level.
  2. NFYB increases chemosensitivity in glioblastoma by promoting HDAC5-mediated transcriptional inhibition of SHMT2.
    Title: NFYB increases chemosensitivity in glioblastoma by promoting HDAC5-mediated transcriptional inhibition of SHMT2.
  3. Long Non-coding RNA H19 Recruits NFYB to Activate MBTD1 and Regulate Doxorubicin Resistance in Lymphoma Cells.
    Title: Long Non-coding RNA H19 Recruits NFYB to Activate MBTD1 and Regulate Doxorubicin Resistance in Lymphoma Cells.
  4. Over-expression of NFYB affects stromal cells reprogramming and predicts worse survival in gastric cancer patients.
    Title: Over-expression of NFYB affects stromal cells reprogramming and predicts worse survival in gastric cancer patients.
  5. NFYB potentiates STK33 activation to promote cisplatin resistance in diffuse large B-cell lymphoma.
    Title: NFYB potentiates STK33 activation to promote cisplatin resistance in diffuse large B-cell lymphoma.
  6. The nuclear transcription factor Y subunit beta (NFYB)-E2F transcription factor 1 (E2F1) pathway displays a crucial role in the chemoresistance ofoxaliplatin-resistant colorectal cancer (OR-CRC) by inducing the expression and activation of checkpoint kinase 1 (CHK1), suggesting a possible therapeutic target for oxaliplatin resistance in CRC.
    Title: NFYB-induced high expression of E2F1 contributes to oxaliplatin resistance in colorectal cancer via the enhancement of CHK1 signaling.
  7. Data indicate that specific cancer-driving nodes are generally under NF-YA/B control.
    Title: NF-Y activates genes of metabolic pathways altered in cancer cells.
  8. Presence of NF-Y transcription factor plays a pivotal role in transcriptional regulation of ID genes in development.
    Title: Epigenetic role of CCAAT box-binding transcription factor NF-Y on ID gene family in human embryonic carcinoma cells.
  9. NF-YB transcription factor was identified as a novel direct E2F1 target.
    Title: E2F1-Mediated Induction of NFYB Attenuates Apoptosis via Joint Regulation of a Pro-Survival Transcriptional Program.
  10. The NF-Y complex is asymmetric, with NF-YB binding approximately 15 bp downstream from the CCAAT motif.
    Title: NF-Y coassociates with FOS at promoters, enhancers, repetitive elements, and inactive chromatin regions, and is stereo-positioned with growth-controlling transcription factors.
Submit: New GeneRIF Correction See all GeneRIFs (24)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome-wide association study of selenium concentrations.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables DNA-binding transcription activator activity, RNA polymerase II-specific IGI
Inferred from Genetic Interaction
more info
 PubMed 
enables DNA-binding transcription factor activity TAS
Traceable Author Statement
more info
 PubMed 
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
  
enables DNA-binding transcription factor activity, RNA polymerase II-specific ISA
Inferred from Sequence Alignment
more info
  
enables DNA-binding transcription factor binding IPI
Inferred from Physical Interaction
more info
 PubMed 
contributes_to RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
contributes_to RNA polymerase II cis-regulatory region sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein heterodimerization activity IEA
Inferred from Electronic Annotation
more info
  
contributes_to transcription cis-regulatory region binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in cellular response to leukemia inhibitory factor IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
part_of CCAAT-binding factor complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of CCAAT-binding factor complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of CCAAT-binding factor complex IPI
Inferred from Physical Interaction
more info
 PubMed 
part_of RNA polymerase II transcription regulator complex IDA
Inferred from Direct Assay
more info
 PubMed 
located_in chromatin ISA
Inferred from Sequence Alignment
more info
  
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
  
located_in nucleoplasm TAS
Traceable Author Statement
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
part_of protein-DNA complex IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
nuclear transcription factor Y subunit beta
Names
CAAT box DNA-binding protein subunit B
CCAAT-binding transcription factor subunit A
Transcription factor NF-Y, B subunit
nuclear transcription factor Y subunit B
nuclear transcription factor Y, beta

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001414518.1 → NP_001401447.1  nuclear transcription factor Y subunit beta isoform a

    Status: REVIEWED

    Source sequence(s)
    AC089983
    UniProtKB/TrEMBL
    F8VSL3
    Related
    ENSP00000448250.2, ENST00000551446.6

  2. NM_001414519.1 → NP_001401448.1  nuclear transcription factor Y subunit beta isoform a

    Status: REVIEWED

    Source sequence(s)
    AC089983
    UniProtKB/TrEMBL
    F8VSL3

  3. NM_001414520.1 → NP_001401449.1  nuclear transcription factor Y subunit beta isoform b

    Status: REVIEWED

    Source sequence(s)
    AC089983
    UniProtKB/Swiss-Prot
    A8K7B9, P25208, Q96IY8

  4. NM_001414521.1 → NP_001401450.1  nuclear transcription factor Y subunit beta isoform b

    Status: REVIEWED

    Source sequence(s)
    AC089983
    UniProtKB/Swiss-Prot
    A8K7B9, P25208, Q96IY8
    Related
    ENSP00000447486.1, ENST00000551727.5

  5. NM_001414522.1 → NP_001401451.1  nuclear transcription factor Y subunit beta isoform c

    Status: REVIEWED

    Source sequence(s)
    AC089983

  6. NM_001414523.1 → NP_001401452.1  nuclear transcription factor Y subunit beta isoform d

    Status: REVIEWED

    Source sequence(s)
    AC089983

  7. NM_001414524.1 → NP_001401453.1  nuclear transcription factor Y subunit beta isoform d

    Status: REVIEWED

    Source sequence(s)
    AC089983

  8. NM_001414525.1 → NP_001401454.1  nuclear transcription factor Y subunit beta isoform d

    Status: REVIEWED

    Source sequence(s)
    AC089983

  9. NM_001414526.1 → NP_001401455.1  nuclear transcription factor Y subunit beta isoform d

    Status: REVIEWED

    Source sequence(s)
    AC089983

  10. NM_001414527.1 → NP_001401456.1  nuclear transcription factor Y subunit beta isoform e

    Status: REVIEWED

    Source sequence(s)
    AC089983

  11. NM_001414528.1 → NP_001401457.1  nuclear transcription factor Y subunit beta isoform f

    Status: REVIEWED

    Source sequence(s)
    AC089983

  12. NM_001414529.1 → NP_001401458.1  nuclear transcription factor Y subunit beta isoform f

    Status: REVIEWED

    Source sequence(s)
    AC089983

  13. NM_001414530.1 → NP_001401459.1  nuclear transcription factor Y subunit beta isoform g

    Status: REVIEWED

    Source sequence(s)
    AC089983

  14. NM_001414531.1 → NP_001401460.1  nuclear transcription factor Y subunit beta isoform h

    Status: REVIEWED

    Source sequence(s)
    AC089983

  15. NM_001414532.1 → NP_001401461.1  nuclear transcription factor Y subunit beta isoform h

    Status: REVIEWED

    Source sequence(s)
    AC089983

  16. NM_006166.4 → NP_006157.1  nuclear transcription factor Y subunit beta isoform b

    See identical proteins and their annotated locations for NP_006157.1

    Status: REVIEWED

    Source sequence(s)
    AA479300, AL042186, AU151875, AW576189, BC005316, BF032637, BG776259, BQ420877, CD678671
    Consensus CDS
    CCDS9098.1
    UniProtKB/Swiss-Prot
    A8K7B9, P25208, Q96IY8
    Related
    ENSP00000240055.3, ENST00000240055.8
    Conserved Domains (1) summary
    pfam00808
    Location:57 → 122
    CBFD_NFYB_HMF; Histone-like transcription factor (CBF/NF-Y) and archaeal histone

RNA

  1. NR_182773.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC089983

  2. NR_182774.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC089983

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    104117086..104138210 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005268910.5 → XP_005268967.1  nuclear transcription factor Y subunit beta isoform X1

    See identical proteins and their annotated locations for XP_005268967.1

    UniProtKB/TrEMBL
    F8VSL3
    Conserved Domains (1) summary
    pfam00808
    Location:58 → 123
    CBFD_NFYB_HMF; Histone-like transcription factor (CBF/NF-Y) and archaeal histone

  2. XM_047428880.1 → XP_047284836.1  nuclear transcription factor Y subunit beta isoform X2

    UniProtKB/Swiss-Prot
    A8K7B9, P25208, Q96IY8

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    104078781..104099908 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054372113.1 → XP_054228088.1  nuclear transcription factor Y subunit beta isoform X1

    UniProtKB/TrEMBL
    F8VSL3

  2. XM_054372114.1 → XP_054228089.1  nuclear transcription factor Y subunit beta isoform X2

    UniProtKB/Swiss-Prot
    A8K7B9, P25208, Q96IY8
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P25208.2 GenPept UniProtKB/Swiss-Prot:P25208

Gene LinkOut

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