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    ZNF407-AS1 ZNF407 antisense RNA 1 [ Homo sapiens (human) ]

    Gene ID: 400657, updated on 17-Sep-2024

    Summary

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    Official Symbol
    ZNF407-AS1provided by HGNC
    Official Full Name
    ZNF407 antisense RNA 1provided by HGNC
    Primary source
    HGNC:HGNC:44331
    See related
    Ensembl:ENSG00000264247 AllianceGenome:HGNC:44331
    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
    LINC00909
    Expression
    Ubiquitous expression in ovary (RPKM 3.1), brain (RPKM 3.1) and 25 other tissues See more
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    Genomic context

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    See ZNF407-AS1 in Genome Data Viewer
    Location:
    18q22.3
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 18 NC_000018.10 (74591774..74597835, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 18 NC_060942.1 (74819146..74825216, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 18 NC_000018.9 (72259010..72265071, complement)

    Chromosome 18 - NC_000018.10Genomic Context describing neighboring genes Neighboring gene H3K27ac hESC enhancer GRCh37_chr18:72163711-72164223 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13497 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13498 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13499 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:72177239-72177740 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:72177741-72178240 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:72208118-72208618 Neighboring gene carnosine dipeptidase 2 Neighboring gene uncharacterized LOC124904324 Neighboring gene carnosine dipeptidase 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13500 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9545 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13501 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr18:72345358-72346557 Neighboring gene VISTA enhancer hs378 Neighboring gene zinc finger protein 407 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13502 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13503 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13504 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr18:72517901-72519100 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr18:72531111-72531933 Neighboring gene VISTA enhancer hs824 Neighboring gene uncharacterized LOC124904323 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr18:72632804-72633403 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr18:72633404-72634002 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr18:72641053-72642252 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr18:72640049-72640868 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:72706703-72707204 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:72707205-72707704 Neighboring gene ReSE screen-validated silencer GRCh37_chr18:72734840-72735036 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:72765356-72765856 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr18:72782275-72783474 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:72784554-72785054 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:72785055-72785555 Neighboring gene uncharacterized LOC124904325

    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. LINC00909 up-regulates pluripotency factors and promotes cancer stemness and metastasis in pancreatic ductal adenocarcinoma by targeting SMAD4. Li Z, et al. Biol Direct, 2024 Mar 19. PMID 38504385, Free PMC Article
    2. LINC00909 promotes tumor progression in human glioma through regulation of miR-194/MUC1-C axis. Liu Z, et al. Biomed Pharmacother, 2019 Aug. PMID 31132669
    3. CRISPRi-based genome-scale identification of functional long noncoding RNA loci in human cells. Liu SJ, et al. Science, 2017 Jan 6. PMID 27980086, Free PMC Article
    4. 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
    5. 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

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. LINC00909 up-regulates pluripotency factors and promotes cancer stemness and metastasis in pancreatic ductal adenocarcinoma by targeting SMAD4.
      Title: LINC00909 up-regulates pluripotency factors and promotes cancer stemness and metastasis in pancreatic ductal adenocarcinoma by targeting SMAD4.
    2. LINC00909 could act as a ceRNA to interact with miR-194 and thereby up-regulate the expression of MUC1-C.
      Title: LINC00909 promotes tumor progression in human glioma through regulation of miR-194/MUC1-C axis.
    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)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Other Names

    • long intergenic non-protein coding RNA 909

    Clone Names

    • FLJ10991

    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_024484.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC116904, BC036588, DA004415, DB148466
      Related
      ENST00000580048.1

    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_000018.10 Reference GRCh38.p14 Primary Assembly

      Range
      74591774..74597835 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060942.1 Alternate T2T-CHM13v2.0

      Range
      74819146..74825216 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001008234.2: Suppressed sequence

      Description
      NM_001008234.2: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate, and because currently there is support for the transcript but not for the protein.
    Nucleotide Protein
    Heading Accession and Version

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