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

Gene ID: 399717, updated on 24-Oct-2023

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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Location:
10p14
Exon count:
2
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (8050450..8053484, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (8051330..8054364, complement)
105.20220307 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. 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
  2. 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
  3. Divergent lncRNA GATA3-AS1 Regulates GATA3 Transcription in T-Helper 2 Cells. Gibbons HR, et al. Front Immunol, 2018. PMID 30420860, Free PMC Article
  4. LncRNA GATA3-AS1 promoted invasion and migration in human endometrial carcinoma by regulating the miR-361/ARRB2 axis. Liu YX, et al. J Mol Med (Berl), 2022 Sep. PMID 35788718
  5. The lncRNA GATA3-AS1/miR-495-3p/CENPU axis predicts poor prognosis of breast cancer via the PLK1 signaling pathway. Lin S, et al. Aging (Albany NY), 2021 Apr 26. PMID 33902008, Free PMC Article

See all (13) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. [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].
  2. 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.
  3. 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.
  4. LncRNA GATA3AS1miR30b5pTex10 axis modulates tumorigenesis in pancreatic cancer.
    Title: LncRNA GATA3‑AS1‑miR‑30b‑5p‑Tex10 axis modulates tumorigenesis in pancreatic cancer.
  5. 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.
  6. 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.
  7. 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)

Genotypes

General gene information

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Markers

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

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_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

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