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    ATP2A1-AS1 ATP2A1 antisense RNA 1 [ Homo sapiens (human) ]

    Gene ID: 100289092, updated on 22-Oct-2024

    Summary

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    Official Symbol
    ATP2A1-AS1provided by HGNC
    Official Full Name
    ATP2A1 antisense RNA 1provided by HGNC
    Primary source
    HGNC:HGNC:51370
    See related
    Ensembl:ENSG00000260442 AllianceGenome:HGNC:51370
    Gene type
    ncRNA
    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 esophagus (RPKM 2.7), prostate (RPKM 2.4) and 13 other tissues See more
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    Genomic context

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    See ATP2A1-AS1 in Genome Data Viewer
    Location:
    16p11.2
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (28878957..28879921, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (29159457..29160421, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (28890278..28891242, complement)

    Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10645 Neighboring gene MPRA-validated peak2552 silencer Neighboring gene microRNA 4721 Neighboring gene Tu translation elongation factor, mitochondrial Neighboring gene SH2B adaptor protein 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10646 Neighboring gene Sharpr-MPRA regulatory region 4004 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7314 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:28885274-28885774 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:28885775-28886275 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10648 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10649 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:28890195-28890968 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7315 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7316 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:28894492-28895301 Neighboring gene ATPase sarcoplasmic/endoplasmic reticulum Ca2+ transporting 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:28917069-28917917 Neighboring gene rabaptin, RAB GTPase binding effector protein 2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10650 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10651 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7317 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7318 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:28937019-28937602 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10652 Neighboring gene CD19 molecule

    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. Transcriptome characterization elucidates signaling networks that control human ES cell growth and differentiation. Brandenberger R, et al. Nat Biotechnol, 2004 Jun. PMID 15146197

    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

    Pathways from PubChem

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    General gene information

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    Markers

    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_046287.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript.
      Source sequence(s)
      AI015924, BX099641, CK823011
      Related
      ENST00000561547.6

    2. NR_046288.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site, compared to variant 1.
      Source sequence(s)
      AI015924, AI825432, CK823011, CN276695
      Related
      ENST00000821823.1

    3. NR_046289.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate splice site, compared to variant 1.
      Source sequence(s)
      AI015924, CK823011, CK823012
      Related
      ENST00000566956.3

    4. NR_046290.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) uses an alternate splice site, compared to variant 1.
      Source sequence(s)
      AI015924, AW451408, CK823011, CN276695
      Related
      ENST00000821825.1

    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_000016.10 Reference GRCh38.p14 Primary Assembly

      Range
      28878957..28879921 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060940.1 Alternate T2T-CHM13v2.0

      Range
      29159457..29160421 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

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    Research Materials