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CA3-AS1 CA3 antisense RNA 1 [ Homo sapiens (human) ]

Gene ID: 100996348, updated on 17-Sep-2024

Summary

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Official Symbol
CA3-AS1provided by HGNC
Official Full Name
CA3 antisense RNA 1provided by HGNC
Primary source
HGNC:HGNC:51657
See related
AllianceGenome:HGNC:51657
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 prostate (RPKM 6.8), esophagus (RPKM 3.7) and 13 other tissues See more
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Genomic context

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See CA3-AS1 in Genome Data Viewer
Location:
8q21.2
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (85441806..85464915, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (85880536..85903628, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (86354035..86377144, complement)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19336 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27594 Neighboring gene carbonic anhydrase 13 Neighboring gene NANOG hESC enhancer GRCh37_chr8:86229148-86229679 Neighboring gene uncharacterized LOC124901970 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27595 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19337 Neighboring gene carbonic anhydrase 1 Neighboring gene CA1 upstream erythroid promoter Neighboring gene NANOG hESC enhancer GRCh37_chr8:86316751-86317252 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:86350925-86351447 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:86350401-86350924 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr8:86373749-86374444 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19338 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19339 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:86376345-86376844 Neighboring gene carbonic anhydrase 3 Neighboring gene uncharacterized LOC105375937 Neighboring gene carbonic anhydrase 2 Neighboring gene MPRA-validated peak7093 silencer Neighboring gene REXO1 like 8, pseudogene

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. Downregulation of LncRNA-RP11-317J10.2 promotes cell proliferation and invasion and predicts poor prognosis in colorectal cancer. Luo J, et al. Scand J Gastroenterol, 2018 Jan. PMID 29073791
  2. Long noncoding RNA CA3-AS1 suppresses gastric cancer migration and invasion by sponging miR-93-5p and targeting BTG3. Zhang XY, et al. Gene Ther, 2022 Sep. PMID 33051589
  3. Overexpression of long non coding RNA CA3-AS1 suppresses proliferation, invasion and promotes apoptosis via miRNA-93/PTEN axis in colorectal cancer. Wei H, et al. Gene, 2019 Mar 1. PMID 30415006
  4. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, Free PMC Article
  5. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Long noncoding RNA CA3-AS1 suppresses gastric cancer migration and invasion by sponging miR-93-5p and targeting BTG3.
    Title: Long noncoding RNA CA3-AS1 suppresses gastric cancer migration and invasion by sponging miR-93-5p and targeting BTG3.
  2. Low CA3-AS1 expression is associated with colorectal cancer progression.
    Title: Overexpression of long non coding RNA CA3-AS1 suppresses proliferation, invasion and promotes apoptosis via miRNA-93/PTEN axis in colorectal cancer.
Submit: New GeneRIF Correction

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)

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_121630.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript.
    Source sequence(s)
    BM717037, DB177224, DB196812

  2. NR_121631.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' terminal exon, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    BM717037, DA940436

  3. NR_121632.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' terminal exon, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AW172333, BM713112, BM717037

  4. NR_121633.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' and 3' terminal exons, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AC084734, AW172333, AW611902

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_000008.11 Reference GRCh38.p14 Primary Assembly

    Range
    85441806..85464915 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060932.1 Alternate T2T-CHM13v2.0

    Range
    85880536..85903628 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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