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    AGPAT4-IT1 AGPAT4 intronic transcript 1 [ Homo sapiens (human) ]

    Gene ID: 79992, updated on 10-Dec-2024

    Summary

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    Official Symbol
    AGPAT4-IT1provided by HGNC
    Official Full Name
    AGPAT4 intronic transcript 1provided by HGNC
    Primary source
    HGNC:HGNC:20988
    See related
    AllianceGenome:HGNC:20988
    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
    C6orf59; NCRNA00241
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    Genomic context

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    See AGPAT4-IT1 in Genome Data Viewer
    Location:
    6q26
    Exon count:
    1
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (161160114..161161982, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (162518519..162520387, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (161581146..161583014, complement)

    Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene H3K27ac hESC enhancer GRCh37_chr6:161412339-161413208 Neighboring gene Sharpr-MPRA regulatory region 85 Neighboring gene NANOG hESC enhancer GRCh37_chr6:161422459-161422960 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25409 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25410 Neighboring gene MAP3K4 antisense RNA 1 Neighboring gene MPRA-validated peak6300 silencer Neighboring gene MED14-independent group 3 enhancer GRCh37_chr6:161500530-161501729 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25411 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr6:161549261-161550460 Neighboring gene Sharpr-MPRA regulatory region 15502 Neighboring gene mitogen-activated protein kinase kinase kinase 4 Neighboring gene uncharacterized LOC124901455 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:161581716-161582274 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:161582962-161583462 Neighboring gene H3K27ac hESC enhancer GRCh37_chr6:161579309-161579810 Neighboring gene H3K27ac hESC enhancer GRCh37_chr6:161579811-161580310 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:161586885-161587594 Neighboring gene NANOG hESC enhancer GRCh37_chr6:161589077-161589672 Neighboring gene Sharpr-MPRA regulatory region 12533 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25412 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr6:161606735-161607934 Neighboring gene ReSE screen-validated silencer GRCh37_chr6:161644168-161644410 Neighboring gene ReSE screen-validated silencer GRCh37_chr6:161647413-161647718 Neighboring gene Sharpr-MPRA regulatory region 4197 Neighboring gene 1-acylglycerol-3-phosphate O-acyltransferase 4 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr6:161713123-161713635 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr6:161724387-161725586 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr6:161736020-161737219 Neighboring gene uncharacterized LOC105378094 Neighboring gene uncharacterized LOC124901457 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:161775686-161776186 Neighboring gene parkin RBR E3 ubiquitin protein ligase

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Mig-6 controls EGFR trafficking and suppresses gliomagenesis. Ying H, et al. Proc Natl Acad Sci U S A, 2010 Apr 13. PMID 20351267, Free PMC Article
    2. The DNA sequence and analysis of human chromosome 6. Mungall AJ, et al. Nature, 2003 Oct 23. PMID 14574404
    3. Toward a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. Wiemann S, et al. Genome Res, 2001 Mar. PMID 11230166, Free PMC Article
    4. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039
    5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article

    See all (6) citations in PubMed

    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)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Other Names

    • AGPAT4 intronic transcript 1 (non-protein coding)

    Clone Names

    • FLJ23112

    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_024277.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL109942

    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_000006.12 Reference GRCh38.p14 Primary Assembly

      Range
      161160114..161161982 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060930.1 Alternate T2T-CHM13v2.0

      Range
      162518519..162520387 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_024929.1: Suppressed sequence

      Description
      NM_024929.1: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9H0P7.1 GenPept UniProtKB/Swiss-Prot:Q9H0P7

    Gene LinkOut

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

    Molecular Biology Databases
    Research Materials