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    CHKB-DT CHKB divergent transcript [ Homo sapiens (human) ]

    Gene ID: 100144603, updated on 10-Dec-2024

    Summary

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    Official Symbol
    CHKB-DTprovided by HGNC
    Official Full Name
    CHKB divergent transcriptprovided by HGNC
    Primary source
    HGNC:HGNC:40146
    See related
    Ensembl:ENSG00000205559 AllianceGenome:HGNC:40146
    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
    HRAT; CHKB-AS1
    Expression
    Broad expression in testis (RPKM 1.6), prostate (RPKM 1.0) and 24 other tissues See more
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    Genomic context

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    See CHKB-DT in Genome Data Viewer
    Location:
    22q13.33
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 22 NC_000022.11 (50583026..50595281)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 22 NC_060946.1 (51093554..51105799)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 22 NC_000022.10 (51021455..51033710)

    Chromosome 22 - NC_000022.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107985568 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19331 Neighboring gene CHKB-CPT1B readthrough (NMD candidate) Neighboring gene carnitine palmitoyltransferase 1B Neighboring gene Sharpr-MPRA regulatory region 1531 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13998 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13999 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14000 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14002 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14001 Neighboring gene choline kinase beta Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14003 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:51039601-51040101 Neighboring gene mitogen-activated protein kinase 8 interacting protein 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:51047655-51048439 Neighboring gene Sharpr-MPRA regulatory region 5053 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19332 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:51064758-51065540 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14004 Neighboring gene arylsulfatase A

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

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    Related articles in PubMed

    1. Deficiency of a novel lncRNA-HRAT protects against myocardial ischemia reperfusion injury by targeting miR-370-3p/RNF41 pathway. Zheng X, et al. Front Cardiovasc Med, 2022. PMID 36172578, Free PMC Article
    2. A genome annotation-driven approach to cloning the human ORFeome. Collins JE, et al. Genome Biol, 2004. PMID 15461802, 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)

    General gene information

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    Markers

    Other Names

    • CHKB antisense RNA 1 (head to head)
    • CTA-384D8.20
    • TCONS_00029632
    • lncRNA-Hypoxia/reoxygenation-associated transcript

    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_021492.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks three exons and contains an alternate 3' terminal exon, resulting in a shorter transcript, compared to variant 1.
      Source sequence(s)
      BE393070, BJ989458, CR456603, CR980518
      Related
      ENST00000380711.3

    2. NR_110536.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript.
      Source sequence(s)
      BI561134, CR456603

    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_000022.11 Reference GRCh38.p14 Primary Assembly

      Range
      50583026..50595281
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060946.1 Alternate T2T-CHM13v2.0

      Range
      51093554..51105799
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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