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    VSIG10L V-set and immunoglobulin domain containing 10 like [ Homo sapiens (human) ]

    Gene ID: 147645, updated on 5-Mar-2024

    Summary

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    Official Symbol
    VSIG10Lprovided by HGNC
    Official Full Name
    V-set and immunoglobulin domain containing 10 likeprovided by HGNC
    Primary source
    HGNC:HGNC:27111
    See related
    Ensembl:ENSG00000186806 MIM:617740; AllianceGenome:HGNC:27111
    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
    Located in nucleoplasm. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in esophagus (RPKM 25.9), salivary gland (RPKM 8.6) and 4 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    Location:
    19q13.41
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (51331541..51342139, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (54419802..54431866, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (51834795..51845393, complement)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107985326 Neighboring gene SIGLEC family like 1 pseudogene Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:51795724-51796402 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:51796403-51797081 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:51797760-51798438 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:51799797-51800474 Neighboring gene IgLON family member 5 Neighboring gene Sharpr-MPRA regulatory region 10915 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:51825217-51825716 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:51831512-51832434 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10983 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10984 Neighboring gene VSIG10L antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15011 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15012 Neighboring gene electron transfer flavoprotein subunit beta Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:51869249-51870208 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10985 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10986 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:51871167-51872126 Neighboring gene claudin domain containing 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. Association Between Germline Mutation in VSIG10L and Familial Barrett Neoplasia. Fecteau RE, et al. JAMA Oncol, 2016 Oct 1. PMID 27467440, Free PMC Article
    2. E-cadherin interactome complexity and robustness resolved by quantitative proteomics. Guo Z, et al. Sci Signal, 2014 Dec 2. PMID 25468996, Free PMC Article
    3. Systematic mapping of genetic interactions for de novo fatty acid synthesis identifies C12orf49 as a regulator of lipid metabolism. Aregger M, et al. Nat Metab, 2020 Jun. PMID 32694731, Free PMC Article
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    GeneRIFs: Gene References Into Functions

    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

    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

    Component Evidence Code Pubs
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    		  

    General protein information

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    Preferred Names
    V-set and immunoglobulin domain-containing protein 10-like
    Names
    VSIG10-like protein

    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_001163922.3 → NP_001157394.1  V-set and immunoglobulin domain-containing protein 10-like precursor

      See identical proteins and their annotated locations for NP_001157394.1

      Status: VALIDATED

      Source sequence(s)
      AC008750, AC063977
      Consensus CDS
      CCDS54300.1
      UniProtKB/Swiss-Prot
      Q86VR7
      Related
      ENSP00000335623.3, ENST00000335624.5
      Conserved Domains (5) summary
      cd00096
      Location:320 → 389
      Ig; Immunoglobulin domain
      smart00408
      Location:421 → 476
      IGc2; Immunoglobulin C-2 Type
      smart00410
      Location:418 → 490
      IG_like; Immunoglobulin like
      pfam07679
      Location:302 → 395
      I-set; Immunoglobulin I-set domain
      cl11960
      Location:198 → 298
      Ig; Immunoglobulin domain

    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_000019.10 Reference GRCh38.p14 Primary Assembly

      Range
      51331541..51342139 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      54419802..54431866 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054319847.1 → XP_054175822.1  V-set and immunoglobulin domain-containing protein 10-like isoform X1

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q86VR7.2 GenPept UniProtKB/Swiss-Prot:Q86VR7

    Gene LinkOut

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

    Chemical Information
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    Tools
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