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    GATA3-AS1 GATA3 antisense RNA 1 [ Homo sapiens (human) ]

    Gene ID: 399717, updated on 10-Dec-2024

    Summary

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    Official Symbol
    GATA3-AS1provided by HGNC
    Official Full Name
    GATA3 antisense RNA 1provided by HGNC
    Primary source
    HGNC:HGNC:33786
    See related
    Ensembl:ENSG00000197308 AllianceGenome:HGNC:33786
    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
    Biased expression in kidney (RPKM 1.7), urinary bladder (RPKM 0.9) and 4 other tissues See more
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    Genomic context

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    See GATA3-AS1 in Genome Data Viewer
    Location:
    10p14
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (8050450..8053484, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (8051330..8054364, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (8092413..8095447, complement)

    Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:7860144-7860662 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:7860663-7861180 Neighboring gene TATA-box binding protein associated factor 3 Neighboring gene Sharpr-MPRA regulatory region 6244 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:8003953-8004117 Neighboring gene Sharpr-MPRA regulatory region 13617 Neighboring gene uncharacterized LOC105376394 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:8084925-8085676 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:8085677-8086428 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:8086674-8087217 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:8087218-8087760 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2983 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:8091667-8092510 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:8092511-8093354 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:8093355-8094198 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2115 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2116 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2117 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2118 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2984 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:8105038-8105952 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:8115451-8116429 Neighboring gene GATA binding protein 3 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:8127093-8127295 Neighboring gene NANOG hESC enhancer GRCh37_chr10:8128242-8128743 Neighboring gene uncharacterized LOC105376395 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2985 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:8154631-8155132 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2986 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2987 Neighboring gene PRP38 domain containing A pseudogene 1

    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. [Effect of LncRNA GATA3-AS1 Targeting MiR-515-5p on Cell Proliferation and Apoptosis in Childhood Acute Lymphoblastic Leukemia Cells]. Qin Y, et al. Zhongguo Shi Yan Xue Ye Xue Za Zhi, 2023 Aug. PMID 37551473
    2. Transcriptome Analysis Identifies GATA3-AS1 as a Long Noncoding RNA Associated with Resistance to Neoadjuvant Chemotherapy in Locally Advanced Breast Cancer Patients. Contreras-Espinosa L, et al. J Mol Diagn, 2021 Oct. PMID 34358678
    3. Profiling of human CD4+ T-cell subsets identifies the TH2-specific noncoding RNA GATA3-AS1. Zhang H, et al. J Allergy Clin Immunol, 2013 Oct. PMID 23870669
    4. Divergent lncRNA GATA3-AS1 Regulates GATA3 Transcription in T-Helper 2 Cells. Gibbons HR, et al. Front Immunol, 2018. PMID 30420860, Free PMC Article
    5. Increased level of GATA3-AS1 long non-coding RNA is correlated with the upregulation of GATA3 and IL-4 genes in multiple sclerosis patients. Keshavarz F, et al. Mol Biol Rep, 2024 Jul 30. PMID 39080124

    See all (15) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Increased level of GATA3-AS1 long non-coding RNA is correlated with the upregulation of GATA3 and IL-4 genes in multiple sclerosis patients.
      Title: Increased level of GATA3-AS1 long non-coding RNA is correlated with the upregulation of GATA3 and IL-4 genes in multiple sclerosis patients.
    2. [Effect of LncRNA GATA3-AS1 Targeting MiR-515-5p on Cell Proliferation and Apoptosis in Childhood Acute Lymphoblastic Leukemia Cells].
      Title: [Effect of LncRNA GATA3-AS1 Targeting MiR-515-5p on Cell Proliferation and Apoptosis in Childhood Acute Lymphoblastic Leukemia Cells].
    3. LncRNA GATA3-AS1 promoted invasion and migration in human endometrial carcinoma by regulating the miR-361/ARRB2 axis.
      Title: LncRNA GATA3-AS1 promoted invasion and migration in human endometrial carcinoma by regulating the miR-361/ARRB2 axis.
    4. Transcriptome Analysis Identifies GATA3-AS1 as a Long Noncoding RNA Associated with Resistance to Neoadjuvant Chemotherapy in Locally Advanced Breast Cancer Patients.
      Title: Transcriptome Analysis Identifies GATA3-AS1 as a Long Noncoding RNA Associated with Resistance to Neoadjuvant Chemotherapy in Locally Advanced Breast Cancer Patients.
    5. LncRNA GATA3AS1miR30b5pTex10 axis modulates tumorigenesis in pancreatic cancer.
      Title: LncRNA GATA3‑AS1‑miR‑30b‑5p‑Tex10 axis modulates tumorigenesis in pancreatic cancer.
    6. The lncRNA GATA3-AS1/miR-495-3p/CENPU axis predicts poor prognosis of breast cancer via the PLK1 signaling pathway.
      Title: The lncRNA GATA3-AS1/miR-495-3p/CENPU axis predicts poor prognosis of breast cancer via the PLK1 signaling pathway.
    7. LncRNA GATA3-AS1 facilitates tumour progression and immune escape in triple-negative breast cancer through destabilization of GATA3 but stabilization of PD-L1.
      Title: LncRNA GATA3-AS1 facilitates tumour progression and immune escape in triple-negative breast cancer through destabilization of GATA3 but stabilization of PD-L1.
    8. Observational study of gene-disease association. (HuGE Navigator)
      Title: Genetic susceptibility to distinct bladder cancer subphenotypes.
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

    Description
    A genome-wide association study of Hodgkin's lymphoma identifies new susceptibility loci at 2p16.1 (REL), 8q24.21 and 10p14 (GATA3).
    EBI GWAS Catalog
    Variation at 3p24.1 and 6q23.3 influences the risk of Hodgkin's lymphoma.
    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)

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ45983, MGC165262

    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_024256.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses the distal promoter and is alternatively spliced, compared to variant 1.
      Source sequence(s)
      AL390294
      Related
      ENST00000355358.1

    2. NR_104327.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) uses the distal promoter in a complex transcribed region.
      Source sequence(s)
      AL390294, BC036297
      Related
      ENST00000458727.1

    3. NR_104328.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) uses the proximal promoter and overlaps variant 1.
      Source sequence(s)
      AL390294, BC141936
      Related
      ENST00000420815.5

    4. NR_104329.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) uses the proximal promoter and overlaps variant 1. It uses alternate splice sited compared to variant 4.
      Source sequence(s)
      AL390294, BC141937

    5. NR_104330.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) uses the proximal promoter and overlaps variant 1. It uses alternate splice sited compared to variant 4.
      Source sequence(s)
      AL390294, BC128075
      Related
      ENST00000438755.1

    6. NR_104336.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses the distal promoter and an alternate splice site, compared to variant 1.
      Source sequence(s)
      AL390294, BC036297, BX089350
      Related
      ENST00000417359.2

    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_000010.11 Reference GRCh38.p14 Primary Assembly

      Range
      8050450..8053484 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060934.1 Alternate T2T-CHM13v2.0

      Range
      8051330..8054364 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_207423.1: Suppressed sequence

      Description
      NM_207423.1: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.

    2. NR_024255.1: Suppressed sequence

      Description
      NR_024255.1: This RefSeq was suppressed because it represents use of unsupported non-consensus splice sites.
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

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    Research Materials