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    LGR4-AS1 LGR4 antisense RNA 1 [ Homo sapiens (human) ]

    Gene ID: 105376671, updated on 17-Sep-2024

    Summary

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    Official Symbol
    LGR4-AS1provided by HGNC
    Official Full Name
    LGR4 antisense RNA 1provided by HGNC
    Primary source
    HGNC:HGNC:40629
    See related
    Ensembl:ENSG00000254862 AllianceGenome:HGNC:40629
    Gene type
    ncRNA
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    lnc-BBOX1-1
    Expression
    Biased expression in kidney (RPKM 3.6), colon (RPKM 2.6) and 12 other tissues See more
    Orthologs
    all
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    Genomic context

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    See LGR4-AS1 in Genome Data Viewer
    Location:
    11p14.1
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (27471731..27482433)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (27612218..27622881)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (27493278..27503980)

    Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105376601 Neighboring gene Sharpr-MPRA regulatory region 9357 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr11:27340270-27341469 Neighboring gene coiled-coil domain containing 34 Neighboring gene Sharpr-MPRA regulatory region 11938 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:27384156-27385023 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4543 Neighboring gene leucine rich repeat containing G protein-coupled receptor 4 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr11:27462218-27462830 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr11:27465211-27465953 Neighboring gene Sharpr-MPRA regulatory region 4633 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:27483166-27483666 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3209 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3210 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3211 Neighboring gene ribosomal protein L37a pseudogene 7 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr11:27527877-27529076 Neighboring gene lin-7 homolog C, crumbs cell polarity complex component

    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 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. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, Free PMC Article

    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 variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    Genotypes

    General gene information

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    Homology

    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_131169.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript.
      Source sequence(s)
      AC100771, AF150379
      Related
      ENST00000525833.5

    2. NR_131170.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) has multiple differences in the 3' region resulting in a shorter transcript, compared to variant 1.
      Source sequence(s)
      AC100771, AF150379, DA085906
      Related
      ENST00000529258.1

    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_000011.10 Reference GRCh38.p14 Primary Assembly

      Range
      27471731..27482433
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060935.1 Alternate T2T-CHM13v2.0

      Range
      27612218..27622881
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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