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DAPK1-IT1 DAPK1 intronic transcript 1 [ Homo sapiens (human) ]

Gene ID: 100506897, updated on 10-Oct-2023

Summary

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Official Symbol
DAPK1-IT1provided by HGNC
Official Full Name
DAPK1 intronic transcript 1provided by HGNC
Primary source
HGNC:HGNC:43591
See related
Ensembl:ENSG00000236709 AllianceGenome:HGNC:43591
Gene type
ncRNA
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
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Genomic context

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See DAPK1-IT1 in Genome Data Viewer
Location:
9q21.33
Exon count:
2
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (87553454..87554459)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (99706940..99707921)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (90168369..90169374)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene cytochrome c oxidase subunit NDUFA4-like Neighboring gene hESC enhancers GRCh37_chr9:90024569-90025224 and GRCh37_chr9:90025225-90025878 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:90025879-90026532 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr9:90031115-90031768 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28518 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28519 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20000 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20001 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:90113131-90113888 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28520 Neighboring gene death associated protein kinase 1 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr9:90145230-90146212 Neighboring gene ribosomal protein S29 pseudogene 18 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_108388 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_108397 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_108402 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:90178705-90179204 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_108408 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_108410 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:90186048-90186548 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:90207629-90208129 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:90215267-90215860 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28521 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28522 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:90234560-90235060 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:90249751-90250336 Neighboring gene ReSE screen-validated silencer GRCh37_chr9:90308876-90309094 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr9:90314444-90315643 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr9:90317453-90318652 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr9:90328302-90329501 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28523 Neighboring gene CTSL promoter region Neighboring gene CTSL 3' regulatory element Neighboring gene EIF3J pseudogene 3 Neighboring gene cathepsin L

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. The lncRNA DAPK-IT1 regulates cholesterol metabolism and inflammatory response in macrophages and promotes atherogenesis. Zhen Z, et al. Biochem Biophys Res Commun, 2019 Sep 3. PMID 31300197
  2. Long noncoding intronic RNAs are differentially expressed in primary and metastatic pancreatic cancer. Tahira AC, et al. Mol Cancer, 2011 Nov 13. PMID 22078386, 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)

Genotypes

General gene information

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Markers

Other Names

  • DAPK1 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_146781.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL161787, BQ025444
    Related
    ENST00000431813.1

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_000009.12 Reference GRCh38.p14 Primary Assembly

    Range
    87553454..87554459
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060933.1 Alternate T2T-CHM13v2.0

    Range
    99706940..99707921
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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Chemical Information
Molecular Biology Databases