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ZNF496-DT ZNF496 divergent transcript [ Homo sapiens (human) ]

Gene ID: 107985115, updated on 28-Oct-2024

Summary

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Official Symbol
ZNF496-DTprovided by HGNC
Official Full Name
ZNF496 divergent transcriptprovided by HGNC
Primary source
HGNC:HGNC:55991
See related
Ensembl:ENSG00000289234 AllianceGenome:HGNC:55991
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
XLOC_000647
Annotation information
Note: This gene has been reviewed for its involvement in coronavirus biology, and is locus in the vicinity of disease-associated variant(s).
Expression
Low expression observed in reference dataset See more
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Genomic context

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See ZNF496-DT in Genome Data Viewer
Location:
1q44
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (247332054..247377232)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (246765168..246810906)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (247495356..247540534)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105373273 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:247453849-247454367 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:247462225-247463124 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:247463125-247464023 Neighboring gene zinc finger protein 496 Neighboring gene NANOG hESC enhancer GRCh37_chr1:247485935-247486439 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:247492160-247492662 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2044 Neighboring gene Sharpr-MPRA regulatory region 5917 Neighboring gene Sharpr-MPRA regulatory region 7964 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:247499115-247499615 Neighboring gene uncharacterized LOC124904574 Neighboring gene Sharpr-MPRA regulatory region 1744 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2866 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:247525936-247526480 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2047 Neighboring gene uncharacterized LOC107985375 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:247556143-247556425 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2867 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2868 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:247587345-247587508 Neighboring gene NLR family pyrin domain containing 3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2869 Neighboring gene uncharacterized LOC124904575 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2870 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2871

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. Long non-coding RNA XLOC_000647 suppresses progression of pancreatic cancer and decreases epithelial-mesenchymal transition-induced cell invasion by down-regulating NLRP3. Hu H, et al. Mol Cancer, 2018 Jan 31. PMID 29386037, Free PMC Article
  2. Trans-ancestry analysis reveals genetic and nongenetic associations with COVID-19 susceptibility and severity. Shelton JF, et al. Nat Genet, 2021 Jun. PMID 33888907
  3. A year of COVID-19 GWAS results from the GRASP portal reveals potential genetic risk factors. Thibord F, et al. HGG Adv, 2022 Apr 14. PMID 35224516, 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

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_168396.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC104335
    Related
    ENST00000697394.1

  2. NR_168397.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC104335
    Related
    ENST00000697405.1

  3. NR_168398.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC104335

  4. NR_168399.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC104335

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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    247332054..247377232
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_025791757.1 Reference GRCh38.p14 PATCHES

    Range
    98497..143675
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    246765168..246810906
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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Molecular Biology Databases