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    ITPKB-IT1 ITPKB intronic transcript 1 [ Homo sapiens (human) ]

    Gene ID: 100506443, updated on 10-Oct-2023

    Summary

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    Official Symbol
    ITPKB-IT1provided by HGNC
    Official Full Name
    ITPKB intronic transcript 1provided by HGNC
    Primary source
    HGNC:HGNC:41349
    See related
    Ensembl:ENSG00000228382 AllianceGenome:HGNC:41349
    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
    Low expression observed in reference dataset See more
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    Genomic context

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    See ITPKB-IT1 in Genome Data Viewer
    Location:
    1q42.12
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (226656080..226675068, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (225844262..225863252, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (226843781..226862769, complement)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105373116 Neighboring gene Sharpr-MPRA regulatory region 7345 Neighboring gene Sharpr-MPRA regulatory region 13952 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:226755704-226756204 Neighboring gene stum, mechanosensory transduction mediator homolog Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:226784052-226784579 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:226785107-226785634 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:226789667-226790203 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:226790204-226790739 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:226791949-226792628 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:226792629-226793308 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2653 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2654 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:226822865-226823648 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:226830147-226830814 Neighboring gene Sharpr-MPRA regulatory region 1086 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2656 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2657 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:226832149-226832814 Neighboring gene MPRA-validated peak735 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:226834481-226835372 Neighboring gene Sharpr-MPRA regulatory region 9391 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2659 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:226841474-226842065 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:226846645-226847475 Neighboring gene inositol-trisphosphate 3-kinase B Neighboring gene uncharacterized LOC124904529 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:226850479-226851004 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2661 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2662 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1886 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2663 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2664 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2665 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:226872731-226873232 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1887 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:226876299-226876798 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1888 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1889 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:226896320-226896495 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2666 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2667 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2668 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2669 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:226905393-226905892 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:226911101-226911856 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1890 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:226925617-226926116 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1891 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2670 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:226942001-226942500 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1892 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2671 Neighboring gene ribosomal protein S27 pseudogene 5 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2672 Neighboring gene uncharacterized LOC124904530 Neighboring gene Sharpr-MPRA regulatory region 12356

    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. Genome-wide association for abdominal subcutaneous and visceral adipose reveals a novel locus for visceral fat in women. Fox CS, et al. PLoS Genet, 2012. PMID 22589738, Free PMC Article

    GeneRIFs: Gene References Into Functions

    Phenotypes

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    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

    Description
    Genome-wide association for abdominal subcutaneous and visceral adipose reveals a novel locus for visceral fat in women.
    EBI GWAS Catalog

    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

    Other Names

    • ITPKB intronic transcript 1 (non-protein coding)

    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_103784.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL365444
      Related
      ENST00000412918.3

    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_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      226656080..226675068 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      225844262..225863252 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

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

    Chemical Information
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    Research Materials