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    CALML3-AS1 CALML3 antisense RNA 1 [ Homo sapiens (human) ]

    Gene ID: 100132159, updated on 17-Sep-2024

    Summary

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    Official Symbol
    CALML3-AS1provided by HGNC
    Official Full Name
    CALML3 antisense RNA 1provided by HGNC
    Primary source
    HGNC:HGNC:44682
    See related
    AllianceGenome:HGNC:44682
    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 esophagus (RPKM 7.7), skin (RPKM 3.8) and 2 other tissues See more
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    Genomic context

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    See CALML3-AS1 in Genome Data Viewer
    Location:
    10p15.1
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (5514244..5526246, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (5517480..5529514, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (5556207..5568209, complement)

    Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2079 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_13203 Neighboring gene neuroepithelial cell transforming 1 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_13225 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2080 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:5509025-5509661 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:5511491-5512062 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:5512063-5512634 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:5512635-5513206 Neighboring gene CRISPRi-validated cis-regulatory element chr10.219 Neighboring gene CRISPRi-validated cis-regulatory element chr10.222 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:5535211-5535389 Neighboring gene Sharpr-MPRA regulatory region 10902 Neighboring gene calmodulin like 5 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:5567229-5567928 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:5567929-5568629 Neighboring gene calmodulin like 3 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:5581099-5581598 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:5588335-5588834 Neighboring gene uncharacterized LOC105376380 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:5595464-5595987 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:5595988-5596510 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:5599714-5600036 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:5602693-5603194 Neighboring gene uncharacterized LOC105376381 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:5605907-5606133

    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. Upregulation of lncRNA CALML3-AS1 promotes cell proliferation and metastasis in cervical cancer via activation of the Wnt/β-catenin pathway. Liu CN, et al. Eur Rev Med Pharmacol Sci, 2019 Jul. PMID 31298313
    2. LncRNA CALML3-AS1 modulated by m(6)A modification induces BTNL9 methylation to drive non-small-cell lung cancer progression. Zhang H, et al. Cancer Gene Ther, 2023 Dec. PMID 37884580
    3. LncRNA CALML3-AS1 regulates chondrocyte apoptosis by acting as a sponge for miR-146a. Nie T, et al. Autoimmunity, 2021 Sep. PMID 34282692
    4. LncRNA CALML3-AS1 suppresses papillary thyroid cancer progression via sponging miR-20a-5p/RBM38 axis. Zhang X, et al. BMC Cancer, 2022 Mar 29. PMID 35351042, Free PMC Article
    5. LncRNA CALML3-AS1 promotes tumorigenesis of bladder cancer via regulating ZBTB2 by suppression of microRNA-4316. Wang F, et al. Biochem Biophys Res Commun, 2018 Sep 26. PMID 30177388

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. LncRNA CALML3-AS1 modulated by m[6]A modification induces BTNL9 methylation to drive non-small-cell lung cancer progression.
      Title: LncRNA CALML3-AS1 modulated by m(6)A modification induces BTNL9 methylation to drive non-small-cell lung cancer progression.
    2. LncRNA CALML3-AS1 suppresses papillary thyroid cancer progression via sponging miR-20a-5p/RBM38 axis.
      Title: LncRNA CALML3-AS1 suppresses papillary thyroid cancer progression via sponging miR-20a-5p/RBM38 axis.
    3. LncRNA CALML3-AS1 regulates chondrocyte apoptosis by acting as a sponge for miR-146a.
      Title: LncRNA CALML3-AS1 regulates chondrocyte apoptosis by acting as a sponge for miR-146a.
    4. Upregulation of lncRNA CALML3-AS1 promotes cell proliferation and metastasis in cervical cancer via activation of the Wnt/beta-catenin pathway.
      Title: Upregulation of lncRNA CALML3-AS1 promotes cell proliferation and metastasis in cervical cancer via activation of the Wnt/β-catenin pathway.
    5. Long noncoding RNA CALML3-AS1 promotes tumorigenesis of bladder cancer via regulating ZBTB2 by suppression of microRNA-4316
      Title: LncRNA CALML3-AS1 promotes tumorigenesis of bladder cancer via regulating ZBTB2 by suppression of microRNA-4316.
    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_120496.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript.
      Source sequence(s)
      AL732437, DA220455, DA770774

    2. NR_120497.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an internal exon, resulting in a shorter transcript, compared to variant 1.
      Source sequence(s)
      AL732437, DA220455

    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
      5514244..5526246 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060934.1 Alternate T2T-CHM13v2.0

      Range
      5517480..5529514 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

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    Molecular Biology Databases
    Research Materials