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BPIFA4P BPI fold containing family A member 4, pseudogene [ Homo sapiens (human) ]

Gene ID: 317716, updated on 10-Oct-2023

Summary

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Official Symbol
BPIFA4Pprovided by HGNC
Official Full Name
BPI fold containing family A member 4, pseudogeneprovided by HGNC
Primary source
HGNC:HGNC:20469
See related
Ensembl:ENSG00000290942 MIM:607627; AllianceGenome:HGNC:20469
Gene type
pseudo
RefSeq status
PROVISIONAL
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
BASE
Summary
Predicted to enable lipid binding activity. Predicted to be involved in regulation of liquid surface tension. Predicted to be located in extracellular region. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Restricted expression toward salivary gland (RPKM 2.1) See more
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Genomic context

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Location:
20q11.21
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (33193605..33210462)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (34920837..34937697)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (31781411..31798268)

Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:31754103-31754604 Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:31754605-31755104 Neighboring gene BPI fold containing family A member 2 Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:31765427-31765928 Neighboring gene suppressor of cytokine signaling 2 pseudogene 1 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr20:31811562-31812761 Neighboring gene BPI fold containing family A member 3 Neighboring gene uncharacterized LOC105372593 Neighboring gene BPI fold containing family A member 1

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. Functional Study of Polymorphism 1888 C>T in the Promoter Region of Human PLUNC Gene. Liu B, et al. Am J Med Sci, 2021 Mar. PMID 33722345
  2. Estrogen induces repression of the breast cancer and salivary gland expression gene in an estrogen receptor alpha-dependent manner. Bretschneider N, et al. Cancer Res, 2008 Jan 1. PMID 18172302
  3. Discovery of the breast cancer gene BASE using a molecular approach to enrich for genes encoding membrane and secreted proteins. Egland KA, et al. Proc Natl Acad Sci U S A, 2003 Feb 4. PMID 12538848, Free PMC Article
  4. Expansion of the Bactericidal/Permeability Increasing-like (BPI-like) protein locus in cattle. Wheeler TT, et al. BMC Genomics, 2007 Mar 15. PMID 17362520, Free PMC Article
  5. Phylogenetic and evolutionary analysis of the PLUNC gene family. Bingle CD, et al. Protein Sci, 2004 Feb. PMID 14739326, Free PMC Article

See all (10) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Functional Study of Polymorphism 1888 C>T in the Promoter Region of Human PLUNC Gene.
    Title: Functional Study of Polymorphism 1888 C>T in the Promoter Region of Human PLUNC Gene.
  2. The focus of this study is on the expression and regulation of the estrogen-regulated breast cancer and salivary gland expression (BASE) gene that may function as a breast cancer marker.
    Title: Estrogen induces repression of the breast cancer and salivary gland expression gene in an estrogen receptor alpha-dependent manner.
  3. tissue distribution of BASE and its expression in cancer cell lines is described
    Title: Discovery of the breast cancer gene BASE using a molecular approach to enrich for genes encoding membrane and secreted proteins.
Submit: New GeneRIF Correction

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome-wide association study of primary dentition pit-and-fissure and smooth surface caries.
EBI GWAS Catalog

Variation

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See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

General gene information

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Markers

Other Names

  • PLUNC family pseudogene
  • breast cancer and salivary gland expression
  • gene expressed only in the salivary gland and breast cancers

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.

RNA

  1. NR_026760.1 RNA Sequence

    Status: PROVISIONAL

    Source sequence(s)
    AY180924
    Related
    ENST00000375465.7

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000020.11 Reference GRCh38.p14 Primary Assembly

    Range
    33193605..33210462
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060944.1 Alternate T2T-CHM13v2.0

    Range
    34920837..34937697
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_173859.1: Suppressed sequence

    Description
    NM_173859.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
Nucleotide Protein
Heading Accession and Version

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