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MS4A15 membrane spanning 4-domains A15 [ Homo sapiens (human) ]

Gene ID: 219995, updated on 3-Apr-2024

Summary

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Official Symbol
MS4A15provided by HGNC
Official Full Name
membrane spanning 4-domains A15provided by HGNC
Primary source
HGNC:HGNC:28573
See related
Ensembl:ENSG00000166961 AllianceGenome:HGNC:28573
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
Predicted to be integral component of membrane. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Restricted expression toward lung (RPKM 22.2) See more
Orthologs
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Genomic context

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Location:
11q12.2
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (60756867..60776733)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (60708024..60727897)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (60524340..60544206)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105369321 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:60468129-60468630 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:60468631-60469130 Neighboring gene membrane spanning 4-domains A8 Neighboring gene membrane spanning 4-domains A18 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:60520950-60521161 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4776 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4777 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4778 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4779 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3373 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:60541913-60542544 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:60542545-60543174 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:60543175-60543804 Neighboring gene uncharacterized LOC105369322 Neighboring gene membrane spanning 4-domains A10 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:60582445-60583180 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr11:60608676-60609875 Neighboring gene CCDC86 antisense RNA 1 Neighboring gene coiled-coil domain containing 86 Neighboring gene prostaglandin D2 receptor 2

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. MS4A15 acts as an oncogene in ovarian cancer through reprogramming energy metabolism. Fang Y, et al. Biochem Biophys Res Commun, 2022 Apr 2. PMID 35151203
  2. Human chromosome 11 DNA sequence and analysis including novel gene identification. Taylor TD, et al. Nature, 2006 Mar 23. PMID 16554811
  3. Genome-scale RNAi screen for host factors required for HIV replication. Zhou H, et al. Cell Host Microbe, 2008 Nov 13. PMID 18976975
  4. The sequence of the human genome. Venter JC, et al. Science, 2001 Feb 16. PMID 11181995
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039

See all (9) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. MS4A15 acts as an oncogene in ovarian cancer through reprogramming energy metabolism.
    Title: MS4A15 acts as an oncogene in ovarian cancer through reprogramming energy metabolism.
Submit: New GeneRIF Correction

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

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Replication interactions

Interaction Pubs
Knockdown of membrane-spanning 4-domains, subfamily A, member 15 (MS4A15) by siRNA inhibits HIV-1 replication in HeLa P4/R5 cells PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Clone Names

  • FLJ34527, MGC35295

Gene Ontology Provided by GOA

Process Evidence Code Pubs
involved_in cell surface receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
membrane-spanning 4-domains subfamily A member 15

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_001098835.2 → NP_001092305.1  membrane-spanning 4-domains subfamily A member 15 isoform 1

    See identical proteins and their annotated locations for NP_001092305.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AP004243, BC031610, BI818815, CR747020, DC359370
    Consensus CDS
    CCDS44617.1
    UniProtKB/Swiss-Prot
    A9UJY6, A9UJY7, F2Z2J5, Q8N5U1
    UniProtKB/TrEMBL
    B4DTI9
    Related
    ENSP00000386022.3, ENST00000405633.4
    Conserved Domains (1) summary
    pfam04103
    Location:73 → 195
    CD20; CD20-like family

  2. NM_001278242.2 → NP_001265171.1  membrane-spanning 4-domains subfamily A member 15 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an in-frame coding exon, compared to variant 1. The resulting isoform (3) lacks an internal segment, compared to isoform 1.
    Source sequence(s)
    AK091846, AK300233, AP004243, AY584609, DC359370
    Consensus CDS
    CCDS60802.1
    UniProtKB/TrEMBL
    B4DTI9
    Related
    ENSP00000434165.1, ENST00000528170.5
    Conserved Domains (1) summary
    pfam04103
    Location:60 → 154
    CD20; CD20-like family

  3. NM_152717.3 → NP_689930.1  membrane-spanning 4-domains subfamily A member 15 isoform 2

    See identical proteins and their annotated locations for NP_689930.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an internal segment in the 5' region and initiates translation at a downstream start codon, compared to variant 1. The resulting isoform (2) has a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    AP004243, BC031610, DC359370
    Consensus CDS
    CCDS7991.1
    UniProtKB/Swiss-Prot
    Q8N5U1
    Related
    ENSP00000338692.4, ENST00000337911.8
    Conserved Domains (1) summary
    pfam04103
    Location:15 → 102
    CD20; CD20-like family

RNA

  1. NR_103481.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) has an additional exon in the 5' region, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK091846, AP004243, BC031610, DC359370
    Related
    ENST00000429322.6

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_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    60756867..60776733
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011544812.4 → XP_011543114.1  membrane-spanning 4-domains subfamily A member 15 isoform X1

    See identical proteins and their annotated locations for XP_011543114.1

    UniProtKB/Swiss-Prot
    A9UJY6, A9UJY7, F2Z2J5, Q8N5U1
    UniProtKB/TrEMBL
    B4DTI9
    Conserved Domains (1) summary
    pfam04103
    Location:73 → 195
    CD20; CD20-like family

  2. XM_047426547.1 → XP_047282503.1  membrane-spanning 4-domains subfamily A member 15 isoform X2

  3. XM_006718459.5 → XP_006718522.1  membrane-spanning 4-domains subfamily A member 15 isoform X3

    See identical proteins and their annotated locations for XP_006718522.1

    UniProtKB/Swiss-Prot
    Q8N5U1
    Conserved Domains (1) summary
    pfam04103
    Location:15 → 102
    CD20; CD20-like family

  4. XM_047426548.1 → XP_047282504.1  membrane-spanning 4-domains subfamily A member 15 isoform X3

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    60708024..60727897
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054367996.1 → XP_054223971.1  membrane-spanning 4-domains subfamily A member 15 isoform X1

  2. XM_054367997.1 → XP_054223972.1  membrane-spanning 4-domains subfamily A member 15 isoform X2

  3. XM_054367998.1 → XP_054223973.1  membrane-spanning 4-domains subfamily A member 15 isoform X3

  4. XM_054367999.1 → XP_054223974.1  membrane-spanning 4-domains subfamily A member 15 isoform X3

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8N5U1.2 GenPept UniProtKB/Swiss-Prot:Q8N5U1

Gene LinkOut

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