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

Gene ID: 100419170, updated on 10-Oct-2023

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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Location:
4q31.3
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (153640168..153681186)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (156964599..157005679)
105.20220307 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)

Genotypes

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_2023_10

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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