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    LOC100419170 toll like receptor 2 pseudogene [ Homo sapiens (human) ]

    Gene ID: 100419170, updated on 17-Sep-2024

    Summary

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    Gene symbol
    LOC100419170
    Gene description
    toll like receptor 2 pseudogene
    See related
    Ensembl:ENSG00000290441
    Gene type
    pseudo
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Expression
    Biased expression in placenta (RPKM 1.4), gall bladder (RPKM 1.2) and 10 other tissues See more
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    Genomic context

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    See LOC100419170 in Genome Data Viewer
    Location:
    4q31.3
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (153640168..153681186)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (156964599..157005679)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (154561320..154602338)

    Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene meiotic nuclear divisions 1 Neighboring gene RNA, 7SL, cytoplasmic 419, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15759 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22053 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22054 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22055 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22056 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15760 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15761 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15762 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:154388523-154389188 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:154390955-154391455 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:154390454-154390954 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22059 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22060 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22061 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22062 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22063 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22064 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22065 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22066 Neighboring gene transmembrane 131 like Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22067 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:154415607-154416604 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22068 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:154433973-154434472 Neighboring gene NANOG hESC enhancer GRCh37_chr4:154442146-154442647 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22069 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr4:154444154-154444994 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22070 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22071 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15763 Neighboring gene uncharacterized LOC105377498 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:154455569-154456145 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr4:154457236-154457741 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:154456146-154456721 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15764 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:154561385-154561884 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15765 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15766 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15767 Neighboring gene WD repeat domain 45 pseudogene 1 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_74840 Neighboring gene uncharacterized LOC105377499 Neighboring gene toll like receptor 2 Neighboring gene ring finger protein 175

    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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    GeneRIFs: Gene References Into Functions

    Phenotypes

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    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    General gene information

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    Markers

    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_134873.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC106865, BC032464
      Related
      ENST00000602666.1

    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_000004.12 Reference GRCh38.p14 Primary Assembly

      Range
      153640168..153681186
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060928.1 Alternate T2T-CHM13v2.0

      Range
      156964599..157005679
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NG_025262.1: Suppressed sequence

      Description
      NG_025262.1: This RefSeq was removed because it is now thought that this pseudogene is transcribed.
    Nucleotide Protein
    Heading Accession and Version

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