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

Gene ID: 100132159, updated on 4-Jan-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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Location:
10p15.1
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (5514244..5526246, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (5517480..5529514, complement)
105.20220307 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
  • 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 regulates chondrocyte apoptosis by acting as a sponge for miR-146a. Nie T, et al. Autoimmunity, 2021 Sep. PMID 34282692
  3. 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
  4. 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
  5. 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

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_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
    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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Other Literature Sources
Molecular Biology Databases
Research Materials