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    LINC00575 long intergenic non-protein coding RNA 575 [ Homo sapiens (human) ]

    Gene ID: 439934, updated on 10-Oct-2023

    Summary

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    Official Symbol
    LINC00575provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 575provided by HGNC
    Primary source
    HGNC:HGNC:21342
    See related
    Ensembl:ENSG00000231782 AllianceGenome:HGNC:21342
    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
    C4orf11
    Expression
    Low expression observed in reference dataset See more
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    Genomic context

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    See LINC00575 in Genome Data Viewer
    Location:
    4q21.22
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (82613113..82621437, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (85942331..85950615, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (83534266..83542590, complement)

    Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene transmembrane protein 150C Neighboring gene ribosomal protein S6 pseudogene Neighboring gene Sharpr-MPRA regulatory region 10449 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:83482867-83483366 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:83506651-83507180 Neighboring gene Sharpr-MPRA regulatory region 8782 Neighboring gene PTPN11 pseudogene 5 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:83561231-83561730 Neighboring gene stearoyl-CoA desaturase 5 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:83614716-83615216 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:83615217-83615717 Neighboring gene uncharacterized LOC124900727 Neighboring gene SLC66A2 pseudogene 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. Identifying differentially expressed genes in the mammalian retina and the retinal pigment epithelium by suppression subtractive hybridization. Schulz HL, et al. Cytogenet Genome Res, 2004. PMID 15218245

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. One transcript expressed exclusively in retina and retinal pigment epithelium is the novel gene C4orf11 which is comprised of four exons on chromosome 4q21.2
      Title: Identifying differentially expressed genes in the mammalian retina and the retinal pigment epithelium by suppression subtractive hybridization.
    Submit: New GeneRIF Correction

    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)

    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_024087.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript.
      Source sequence(s)
      AY316301
      Related
      ENST00000426551.5

    2. NR_024088.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site resulting in a shorter transcript, compared to variant 1.
      Source sequence(s)
      AY316302
      Related
      ENST00000515811.1

    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
      82613113..82621437 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060928.1 Alternate T2T-CHM13v2.0

      Range
      85942331..85950615 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001033661.1: Suppressed sequence

      Description
      NM_001033661.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6W349.1 GenPept UniProtKB/Swiss-Prot:Q6W349

    Gene LinkOut

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

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