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    LINC00537 long intergenic non-protein coding RNA 537 [ Homo sapiens (human) ]

    Gene ID: 203274, updated on 10-Oct-2023

    Summary

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    Official Symbol
    LINC00537provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 537provided by HGNC
    Primary source
    HGNC:HGNC:43654
    See related
    AllianceGenome:HGNC:43654
    Gene type
    ncRNA
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
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    Genomic context

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    See LINC00537 in Genome Data Viewer
    Location:
    9q13
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (63812941..63819029)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (47736655..47742743, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (68408675..68414763)

    Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene prostaglandin E receptor 4 pseudogene 3 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:68377249-68377750 Neighboring gene translation initiation factor IF-2-like Neighboring gene H3K4me1 hESC enhancers GRCh37_chr9:68379895-68380396 and GRCh37_chr9:68380397-68380896 Neighboring gene NANOG hESC enhancer GRCh37_chr9:68401403-68401904 Neighboring gene OCT4 hESC enhancer GRCh37_chr9:68404885-68405386 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:68410724-68411252 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:68411253-68411781 Neighboring gene RNA, 5S ribosomal pseudogene 284 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:68413366-68413904 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:68413905-68414441 Neighboring gene double homeobox 4 like 50 (pseudogene) Neighboring gene microRNA 4477b Neighboring gene NANOG hESC enhancer GRCh37_chr9:68420179-68420680 Neighboring gene Sharpr-MPRA regulatory region 9804 Neighboring gene Sharpr-MPRA regulatory region 11770 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr9:68424461-68425069 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr9:68425679-68426286 Neighboring gene FSHD region gene 1 family member J, pseudogene Neighboring gene MPRA-validated peak7254 silencer

    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. SUMOylation of DDX39A Alters Binding and Export of Antiviral Transcripts to Control Innate Immunity. Shi P, et al. J Immunol, 2020 Jul 1. PMID 32393512
    2. 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
    3. 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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    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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    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables structural constituent of ribosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in ribosome IEA
    Inferred from Electronic Annotation
    more info
    		  

    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_146625.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript.
      Source sequence(s)
      BC110369, CR786580

    2. NR_146626.1 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)
      BC110369, CR786580

    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_000009.12 Reference GRCh38.p14 Primary Assembly

      Range
      63812941..63819029
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060933.1 Alternate T2T-CHM13v2.0

      Range
      47736655..47742743 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

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