U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination
    • Showing Current items.

    VSTM1 V-set and transmembrane domain containing 1 [ Homo sapiens (human) ]

    Gene ID: 284415, updated on 3-Dec-2024

    Summary

    Official Symbol
    VSTM1provided by HGNC
    Official Full Name
    V-set and transmembrane domain containing 1provided by HGNC
    Primary source
    HGNC:HGNC:29455
    See related
    Ensembl:ENSG00000189068 MIM:616804; AllianceGenome:HGNC:29455
    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
    Also known as
    SIRL1; SIRL-1; UNQ3033
    Summary
    Predicted to enable cytokine activity. Predicted to be involved in immune response-regulating signaling pathway. Predicted to be located in extracellular space and membrane. Predicted to be active in plasma membrane. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Restricted expression toward bone marrow (RPKM 28.7) See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See VSTM1 in Genome Data Viewer
    Location:
    19q13.42
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (54040825..54063897, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (57119327..57142392, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (54544079..54567151, complement)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene calcium voltage-gated channel auxiliary subunit gamma 8 Neighboring gene microRNA 935 Neighboring gene calcium voltage-gated channel auxiliary subunit gamma 6 Neighboring gene Sharpr-MPRA regulatory region 12456 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:54526043-54526246 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr19:54539139-54539714 Neighboring gene T cell-interacting, activating receptor on myeloid cells 1 Neighboring gene osteoclast associated Ig-like receptor

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC119160, MGC119161

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables cytokine activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in immune response-regulating signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in immune system process IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    located_in extracellular space IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    V-set and transmembrane domain-containing protein 1
    Names
    LAIR homolog
    OSCAR-like transcript-1
    signal inhibitory receptor on leukocytes-1

    NCBI Reference Sequences (RefSeq)

    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_001288791.2NP_001275720.1  V-set and transmembrane domain-containing protein 1 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks one exon and contains an alternate exon in the 5' coding region, which results in a frameshift and use of an alternate start codon, compared to variant 1. The encoded isoform (2) has a shorter and distinct N-terminus, compared to isoform 1.
      Source sequence(s)
      AC012314, AI457604, AY358542, FJ584317, FJ584320
      UniProtKB/TrEMBL
      A0A0G2JPS7, D2DJS6
    2. NM_001288792.2NP_001275721.1  V-set and transmembrane domain-containing protein 1 isoform 3 precursor

      See identical proteins and their annotated locations for NP_001275721.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an in-frame exon in the central coding region, compared to variant 1. The encoded isoform (3) is shorter, compared to isoform 1.
      Source sequence(s)
      AI457604, AY358542, BC100943, FJ584317
      Consensus CDS
      CCDS74442.1
      UniProtKB/Swiss-Prot
      Q6UX27
      Related
      ENSP00000365813.1, ENST00000376626.5
      Conserved Domains (2) summary
      smart00410
      Location:35117
      IG_like; Immunoglobulin like
      cl11960
      Location:27118
      Ig; Immunoglobulin domain
    3. NM_001288793.2NP_001275722.1  V-set and transmembrane domain-containing protein 1 isoform 4

      See identical proteins and their annotated locations for NP_001275722.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) lacks three consecutive exons in the central coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (4) is shorter, compared to isoform 1.
      Source sequence(s)
      AI457604, AY358542, FJ584319
      Consensus CDS
      CCDS74441.1
      UniProtKB/TrEMBL
      D2DJS5, F5GZW9
      Related
      ENSP00000444153.2, ENST00000366170.6
    4. NM_198481.4NP_940883.2  V-set and transmembrane domain-containing protein 1 isoform 1 precursor

      See identical proteins and their annotated locations for NP_940883.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AI457604, AY358542, BG189223
      Consensus CDS
      CCDS12872.1
      UniProtKB/Swiss-Prot
      B6A8C6, D2DJS3, D2DJS4, Q496B6, Q496B7, Q6UX27
      Related
      ENSP00000343366.2, ENST00000338372.7
      Conserved Domains (2) summary
      smart00410
      Location:35117
      IG_like; Immunoglobulin like
      cl11960
      Location:27118
      Ig; Immunoglobulin domain

    RNA

    1. NR_110142.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) contains an alternate internal exon, 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)
      AC012314, AI457604, AY358542, FJ882051

    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_000019.10 Reference GRCh38.p14 Primary Assembly

      Range
      54040825..54063897 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011526849.2XP_011525151.1  V-set and transmembrane domain-containing protein 1 isoform X6

      See identical proteins and their annotated locations for XP_011525151.1

      Conserved Domains (2) summary
      smart00410
      Location:35117
      IG_like; Immunoglobulin like
      cl11960
      Location:27118
      Ig; Immunoglobulin domain
    2. XM_011526848.2XP_011525150.1  V-set and transmembrane domain-containing protein 1 isoform X4

      See identical proteins and their annotated locations for XP_011525150.1

      Conserved Domains (2) summary
      smart00410
      Location:35117
      IG_like; Immunoglobulin like
      cl11960
      Location:27118
      Ig; Immunoglobulin domain
    3. XM_011526846.2XP_011525148.1  V-set and transmembrane domain-containing protein 1 isoform X2

      See identical proteins and their annotated locations for XP_011525148.1

      Conserved Domains (2) summary
      smart00410
      Location:35117
      IG_like; Immunoglobulin like
      cl11960
      Location:27118
      Ig; Immunoglobulin domain
    4. XM_011526847.2XP_011525149.1  V-set and transmembrane domain-containing protein 1 isoform X3

      See identical proteins and their annotated locations for XP_011525149.1

      Conserved Domains (2) summary
      smart00410
      Location:35117
      IG_like; Immunoglobulin like
      cl11960
      Location:27118
      Ig; Immunoglobulin domain
    5. XM_011526845.2XP_011525147.1  V-set and transmembrane domain-containing protein 1 isoform X1

      See identical proteins and their annotated locations for XP_011525147.1

      Conserved Domains (2) summary
      smart00410
      Location:35117
      IG_like; Immunoglobulin like
      cl11960
      Location:27118
      Ig; Immunoglobulin domain
    6. XM_047438667.1XP_047294623.1  V-set and transmembrane domain-containing protein 1 isoform X5

      UniProtKB/TrEMBL
      A0A2R8Y636
      Related
      ENSP00000495014.1, ENST00000645936.1
    7. XM_017026666.2XP_016882155.1  V-set and transmembrane domain-containing protein 1 isoform X7

      UniProtKB/Swiss-Prot
      Q6UX27
      Related
      ENSP00000401926.1, ENST00000447872.5
      Conserved Domains (1) summary
      cl11960
      Location:27118
      Ig; Immunoglobulin domain

    Reference GRCh38.p14 ALT_REF_LOCI_1

    Genomic

    1. NW_003571054.1 Reference GRCh38.p14 ALT_REF_LOCI_1

      Range
      15192..38264 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054329679.1XP_054185654.1  V-set and transmembrane domain-containing protein 1 isoform X6

    2. XM_054329678.1XP_054185653.1  V-set and transmembrane domain-containing protein 1 isoform X4

    3. XM_054329676.1XP_054185651.1  V-set and transmembrane domain-containing protein 1 isoform X2

    4. XM_054329677.1XP_054185652.1  V-set and transmembrane domain-containing protein 1 isoform X3

    5. XM_054329675.1XP_054185650.1  V-set and transmembrane domain-containing protein 1 isoform X1

    RNA

    1. XR_008485658.1 RNA Sequence

    2. XR_008485657.1 RNA Sequence

    Reference GRCh38.p14 ALT_REF_LOCI_2

    Genomic

    1. NW_003571055.2 Reference GRCh38.p14 ALT_REF_LOCI_2

      Range
      15192..38264 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054330163.1XP_054186138.1  V-set and transmembrane domain-containing protein 1 isoform X6

    2. XM_054330161.1XP_054186136.1  V-set and transmembrane domain-containing protein 1 isoform X4

    3. XM_054330159.1XP_054186134.1  V-set and transmembrane domain-containing protein 1 isoform X2

    4. XM_054330160.1XP_054186135.1  V-set and transmembrane domain-containing protein 1 isoform X3

    5. XM_054330158.1XP_054186133.1  V-set and transmembrane domain-containing protein 1 isoform X1

    6. XM_054330162.1XP_054186137.1  V-set and transmembrane domain-containing protein 1 isoform X5

      UniProtKB/TrEMBL
      A0A2R8Y636
    7. XM_054330164.1XP_054186139.1  V-set and transmembrane domain-containing protein 1 isoform X7

    Reference GRCh38.p14 ALT_REF_LOCI_3

    Genomic

    1. NW_003571056.2 Reference GRCh38.p14 ALT_REF_LOCI_3

      Range
      15192..38264 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054330471.1XP_054186446.1  V-set and transmembrane domain-containing protein 1 isoform X6

    2. XM_054330469.1XP_054186444.1  V-set and transmembrane domain-containing protein 1 isoform X4

    3. XM_054330467.1XP_054186442.1  V-set and transmembrane domain-containing protein 1 isoform X2

    4. XM_054330468.1XP_054186443.1  V-set and transmembrane domain-containing protein 1 isoform X3

    5. XM_054330466.1XP_054186441.1  V-set and transmembrane domain-containing protein 1 isoform X1

    6. XM_054330470.1XP_054186445.1  V-set and transmembrane domain-containing protein 1 isoform X5

      UniProtKB/TrEMBL
      A0A2R8Y636
    7. XM_054330472.1XP_054186447.1  V-set and transmembrane domain-containing protein 1 isoform X7

    Reference GRCh38.p14 ALT_REF_LOCI_4

    Genomic

    1. NW_003571057.2 Reference GRCh38.p14 ALT_REF_LOCI_4

      Range
      15192..38264 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054330724.1XP_054186699.1  V-set and transmembrane domain-containing protein 1 isoform X6

    2. XM_054330722.1XP_054186697.1  V-set and transmembrane domain-containing protein 1 isoform X4

    3. XM_054330720.1XP_054186695.1  V-set and transmembrane domain-containing protein 1 isoform X2

    4. XM_054330721.1XP_054186696.1  V-set and transmembrane domain-containing protein 1 isoform X3

    5. XM_054330719.1XP_054186694.1  V-set and transmembrane domain-containing protein 1 isoform X1

    6. XM_054330723.1XP_054186698.1  V-set and transmembrane domain-containing protein 1 isoform X5

      UniProtKB/TrEMBL
      A0A2R8Y636
    7. XM_054330725.1XP_054186700.1  V-set and transmembrane domain-containing protein 1 isoform X7

    Reference GRCh38.p14 ALT_REF_LOCI_5

    Genomic

    1. NW_003571058.2 Reference GRCh38.p14 ALT_REF_LOCI_5

      Range
      15192..38264 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054330954.1XP_054186929.1  V-set and transmembrane domain-containing protein 1 isoform X6

    2. XM_054330953.1XP_054186928.1  V-set and transmembrane domain-containing protein 1 isoform X4

    3. XM_054330951.1XP_054186926.1  V-set and transmembrane domain-containing protein 1 isoform X2

    4. XM_054330952.1XP_054186927.1  V-set and transmembrane domain-containing protein 1 isoform X3

    5. XM_054330950.1XP_054186925.1  V-set and transmembrane domain-containing protein 1 isoform X1

    RNA

    1. XR_008485707.1 RNA Sequence

    2. XR_008485706.1 RNA Sequence

    Reference GRCh38.p14 ALT_REF_LOCI_6

    Genomic

    1. NW_003571059.2 Reference GRCh38.p14 ALT_REF_LOCI_6

      Range
      15192..38264 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054331233.1XP_054187208.1  V-set and transmembrane domain-containing protein 1 isoform X6

    2. XM_054331231.1XP_054187206.1  V-set and transmembrane domain-containing protein 1 isoform X4

    3. XM_054331229.1XP_054187204.1  V-set and transmembrane domain-containing protein 1 isoform X2

    4. XM_054331230.1XP_054187205.1  V-set and transmembrane domain-containing protein 1 isoform X3

    5. XM_054331228.1XP_054187203.1  V-set and transmembrane domain-containing protein 1 isoform X1

    6. XM_054331232.1XP_054187207.1  V-set and transmembrane domain-containing protein 1 isoform X5

      UniProtKB/TrEMBL
      A0A2R8Y636
    7. XM_054331234.1XP_054187209.1  V-set and transmembrane domain-containing protein 1 isoform X7

    Reference GRCh38.p14 ALT_REF_LOCI_7

    Genomic

    1. NW_003571060.1 Reference GRCh38.p14 ALT_REF_LOCI_7

      Range
      15192..38264 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054331508.1XP_054187483.1  V-set and transmembrane domain-containing protein 1 isoform X6

    2. XM_054331506.1XP_054187481.1  V-set and transmembrane domain-containing protein 1 isoform X4

    3. XM_054331504.1XP_054187479.1  V-set and transmembrane domain-containing protein 1 isoform X2

    4. XM_054331505.1XP_054187480.1  V-set and transmembrane domain-containing protein 1 isoform X3

    5. XM_054331503.1XP_054187478.1  V-set and transmembrane domain-containing protein 1 isoform X1

    6. XM_054331507.1XP_054187482.1  V-set and transmembrane domain-containing protein 1 isoform X5

      UniProtKB/TrEMBL
      A0A2R8Y636
    7. XM_054331509.1XP_054187484.1  V-set and transmembrane domain-containing protein 1 isoform X7

    Reference GRCh38.p14 ALT_REF_LOCI_8

    Genomic

    1. NW_003571061.2 Reference GRCh38.p14 ALT_REF_LOCI_8

      Range
      15192..38264 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054333544.1XP_054189519.1  V-set and transmembrane domain-containing protein 1 isoform X6

    2. XM_054333543.1XP_054189518.1  V-set and transmembrane domain-containing protein 1 isoform X4

    3. XM_054333541.1XP_054189516.1  V-set and transmembrane domain-containing protein 1 isoform X2

    4. XM_054333542.1XP_054189517.1  V-set and transmembrane domain-containing protein 1 isoform X3

    5. XM_054333540.1XP_054189515.1  V-set and transmembrane domain-containing protein 1 isoform X1

    RNA

    1. XR_008485850.1 RNA Sequence

    2. XR_008485849.1 RNA Sequence

    Reference GRCh38.p14 ALT_REF_LOCI_9

    Genomic

    1. NT_187693.1 Reference GRCh38.p14 ALT_REF_LOCI_9

      Range
      15192..38264 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054333645.1XP_054189620.1  V-set and transmembrane domain-containing protein 1 isoform X6

    2. XM_054333644.1XP_054189619.1  V-set and transmembrane domain-containing protein 1 isoform X4

    3. XM_054333642.1XP_054189617.1  V-set and transmembrane domain-containing protein 1 isoform X2

    4. XM_054333643.1XP_054189618.1  V-set and transmembrane domain-containing protein 1 isoform X3

    5. XM_054333641.1XP_054189616.1  V-set and transmembrane domain-containing protein 1 isoform X1

    RNA

    1. XR_008485855.1 RNA Sequence

    2. XR_008485854.1 RNA Sequence

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      57119327..57142392 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054320681.1XP_054176656.1  V-set and transmembrane domain-containing protein 1 isoform X6

    2. XM_054320679.1XP_054176654.1  V-set and transmembrane domain-containing protein 1 isoform X4

    3. XM_054320677.1XP_054176652.1  V-set and transmembrane domain-containing protein 1 isoform X2

    4. XM_054320678.1XP_054176653.1  V-set and transmembrane domain-containing protein 1 isoform X3

    5. XM_054320676.1XP_054176651.1  V-set and transmembrane domain-containing protein 1 isoform X1

    6. XM_054320680.1XP_054176655.1  V-set and transmembrane domain-containing protein 1 isoform X5

      UniProtKB/TrEMBL
      A0A2R8Y636
    7. XM_054320682.1XP_054176657.1  V-set and transmembrane domain-containing protein 1 isoform X7