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

    Gene ID: 219995, updated on 27-Nov-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 involved in cell surface receptor signaling pathway. Predicted to be located in membrane. Predicted to be active in plasma membrane. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Restricted expression toward lung (RPKM 22.2) See more
    Orthologs
    mouse all
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    Genomic context

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    See MS4A15 in Genome Data Viewer
    Location:
    11q12.2
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (60756867..60776733)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (60708024..60727897)
    RS_2024_09 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)

    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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    NEW Try the new Transcript table

    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_2024_08

    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

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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