LINC00689 Gene

Name long intergenic non-protein coding RNA 689
Description Implicated in colorectal cancer. [provided by Alliance of Genome Resources, Mar 2025]
Summary
{"type": "root", "children": [{"type": "p", "children": [{"type": "t", "text": "\n Long intergenic non‐coding RNA 689 (LINC00689) has emerged as a multifunctional regulatory RNA whose dysregulation is implicated in a spectrum of human diseases, particularly cancers. In glioma, for instance, elevated LINC00689 levels promote cell proliferation, migration, invasion, and enhanced glycolysis by functioning as a competing endogenous RNA (ceRNA) that sequesters microRNAs such as miR‑338‑3p and miR‑526b‑3p—thereby up‐regulating targets like PKM2 and IGF2BP1 to activate critical pathways including MAPK signaling."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "1"}]}, {"type": "t", "text": "\n In contrast, in colorectal cancer, LINC00689 is downregulated and appears to mediate tumor‐suppressive effects by sponging miR‑31‑5p, which leads to the upregulation of LATS2 and subsequent inhibition of proliferation, chemoresistance, and metastasis."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "3"}]}, {"type": "t", "text": "\n "}]}, {"type": "t", "text": "\n "}, {"type": "p", "children": [{"type": "t", "text": "\n In gastric cancer, several studies have demonstrated that LINC00689 is overexpressed where it drives cancer progression by promoting cell growth, epithelial–mesenchymal transition (EMT) and inflammatory cytokine secretion. Mechanistically, LINC00689 acts as a ceRNA—either by binding miR‑338‑3p to derepress HOXA3 or by modulating miR‑526b‑3p to affect ADAM9 expression."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "4"}]}, {"type": "t", "text": "\n In osteosarcoma, upregulation of LINC00689 promotes tumor progression via the miR‑655/SOX18 axis"}, {"type": "fg", "children": [{"type": "fg_f", "ref": "6"}]}, {"type": "t", "text": ", while in triple‑negative breast cancer its tumor‑promoting role is mediated by sequestering miR‑142‑3p to enhance USP6NL expression, thereby facilitating cell migration, invasion, and EMT."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "7"}]}, {"type": "t", "text": "\n "}]}, {"type": "t", "text": "\n "}, {"type": "p", "children": [{"type": "t", "text": "\n In prostate cancer, LINC00689 is upregulated and contributes to disease progression by sponging miR‑496, which in turn prevents the degradation of CTNNB1 and thereby activates the Wnt signaling pathway."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "8"}]}, {"type": "t", "text": "\n Beyond cancer, genetic studies have identified LINC00689 in the context of obesity, where variants nearby are significantly associated with the condition"}, {"type": "fg", "children": [{"type": "fg_f", "ref": "9"}]}, {"type": "t", "text": ", and in neurodevelopmental disorders such as autism spectrum disorder, where its overexpression is observed."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "10"}]}, {"type": "t", "text": " Intriguingly, a regulatory variant in the 3′ untranslated region of the VIPR2 gene acts as a cis‑eQTL for LINC00689 in a tissue‑specific manner and has been linked to opioid addiction."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "11"}]}, {"type": "t", "text": "\n "}]}, {"type": "t", "text": "\n "}, {"type": "p", "children": [{"type": "t", "text": "\n Moreover, in uveal melanoma, LINC00689 has been identified as an enhancer RNA with independent prognostic value."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "12"}]}, {"type": "t", "text": " Finally, recent work has revealed that LINC00689 can also encode a functional micropeptide—STORM—which is induced by stress and TNF‑α via MST1‑mediated phosphorylation of eIF4E. This micropeptide competes with SRP19 for binding to 7SL RNA, thereby linking LINC00689 to the regulation of both mRNA and lncRNA translation."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "13"}]}, {"type": "t", "text": "\n "}]}, {"type": "t", "text": "\n "}, {"type": "p", "children": [{"type": "t", "text": "\n Collectively, these studies underscore a context‑dependent role for LINC00689 that spans from acting as an oncogenic ceRNA in various cancers to contributing to metabolic and neuropsychological disorders, as well as participating in translational control through micropeptide production.\n "}]}, {"type": "rg", "children": [{"type": "r", "ref": 1, "children": [{"type": "t", "text": "Xin Liu, Qiaojuan Zhu, Yang Guo, et al. "}, {"type": "b", "children": [{"type": "t", "text": "LncRNA LINC00689 promotes the growth, metastasis and glycolysis of glioma cells by targeting miR-338-3p/PKM2 axis."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Biomed Pharmacother (2019)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.biopha.2019.109069"}], "href": "https://doi.org/10.1016/j.biopha.2019.109069"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "31181442"}], "href": "https://pubmed.ncbi.nlm.nih.gov/31181442"}]}, {"type": "r", "ref": 2, "children": [{"type": "t", "text": "Wen-Liang Zhan, Ning Gao, Guo-Long Tu, et al. "}, {"type": "b", "children": [{"type": "t", "text": "LncRNA LINC00689 Promotes the Tumorigenesis of Glioma via Mediation of miR-526b-3p/IGF2BP1 Axis."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Neuromolecular Med (2021)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1007/s12017-020-08635-x"}], "href": "https://doi.org/10.1007/s12017-020-08635-x"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "33389570"}], "href": "https://pubmed.ncbi.nlm.nih.gov/33389570"}]}, {"type": "r", "ref": 3, "children": [{"type": "t", "text": "Yong-Liang Du, Yan Liang, Guang-Qing Shi, et al. "}, {"type": "b", "children": [{"type": "t", "text": "LINC00689 participates in proliferation, chemoresistance and metastasis via miR-31-5p/YAP/β-catenin axis in colorectal cancer."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Exp Cell Res (2020)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.yexcr.2020.112176"}], "href": "https://doi.org/10.1016/j.yexcr.2020.112176"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "32682784"}], "href": "https://pubmed.ncbi.nlm.nih.gov/32682784"}]}, {"type": "r", "ref": 4, "children": [{"type": "t", "text": "Hui Lu, Qian Zhang, Yaqiong Sun, et al. "}, {"type": "b", "children": [{"type": "t", "text": "LINC00689 induces gastric cancer progression via modulating the miR-338-3p/HOXA3 axis."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "J Gene Med (2020)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1002/jgm.3275"}], "href": "https://doi.org/10.1002/jgm.3275"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "32926751"}], "href": "https://pubmed.ncbi.nlm.nih.gov/32926751"}]}, {"type": "r", "ref": 5, "children": [{"type": "t", "text": "Gang Yin, PeiRong Tian, Amin BuHe, et al. "}, {"type": "b", "children": [{"type": "t", "text": "LncRNA LINC00689 Promotes the Progression of Gastric Cancer Through Upregulation of ADAM9 by Sponging miR-526b-3p."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Cancer Manag Res (2020)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.2147/CMAR.S231042"}], "href": "https://doi.org/10.2147/CMAR.S231042"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "32581594"}], "href": "https://pubmed.ncbi.nlm.nih.gov/32581594"}]}, {"type": "r", "ref": 6, "children": [{"type": "t", "text": "W Xing, W-Y Xu, L Chang, et al. "}, {"type": "b", "children": [{"type": "t", "text": "SP1-induced lncRNA LINC00689 overexpression contributes to osteosarcoma progression via the miR-655/SOX18 axis."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Eur Rev Med Pharmacol Sci (2020)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.26355/eurrev_202003_20486"}], "href": "https://doi.org/10.26355/eurrev_202003_20486"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "32196572"}], "href": "https://pubmed.ncbi.nlm.nih.gov/32196572"}]}, {"type": "r", "ref": 7, "children": [{"type": "t", "text": "Teng Ma, Huaidong Liu, Yan Liu, et al. "}, {"type": "b", "children": [{"type": "t", "text": "USP6NL mediated by LINC00689/miR-142-3p promotes the development of triple-negative breast cancer."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "BMC Cancer (2020)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1186/s12885-020-07394-z"}], "href": "https://doi.org/10.1186/s12885-020-07394-z"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "33054738"}], "href": "https://pubmed.ncbi.nlm.nih.gov/33054738"}]}, {"type": "r", "ref": 8, "children": [{"type": "t", "text": "Liwei Meng, Zhonghai Li, Ye Chen, et al. "}, {"type": "b", "children": [{"type": "t", "text": "LINC00689 promotes prostate cancer progression via regulating miR-496/CTNNB1 to activate Wnt pathway."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Cancer Cell Int (2020)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1186/s12935-020-01280-1"}], "href": "https://doi.org/10.1186/s12935-020-01280-1"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "32518524"}], "href": "https://pubmed.ncbi.nlm.nih.gov/32518524"}]}, {"type": "r", "ref": 9, "children": [{"type": "t", "text": "Yili Wu, Weijing Wang, Wenjie Jiang, et al. "}, {"type": "b", "children": [{"type": "t", "text": "An investigation of obesity susceptibility genes in Northern Han Chinese by targeted resequencing."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Medicine (Baltimore) (2017)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1097/MD.0000000000006117"}], "href": "https://doi.org/10.1097/MD.0000000000006117"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "28207535"}], "href": "https://pubmed.ncbi.nlm.nih.gov/28207535"}]}, {"type": "r", "ref": 10, "children": [{"type": "t", "text": "Soudeh Ghafouri-Fard, Rezvan Noroozi, Serge Brand, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Emerging Role of Non-coding RNAs in Autism Spectrum Disorder."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "J Mol Neurosci (2022)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1007/s12031-021-01934-3"}], "href": "https://doi.org/10.1007/s12031-021-01934-3"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "34767189"}], "href": "https://pubmed.ncbi.nlm.nih.gov/34767189"}]}, {"type": "r", "ref": 11, "children": [{"type": "t", "text": "Orna Levran, Matthew Randesi, John Rotrosen, et al. "}, {"type": "b", "children": [{"type": "t", "text": "A 3' UTR SNP rs885863, a cis-eQTL for the circadian gene VIPR2 and lincRNA 689, is associated with opioid addiction."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "PLoS One (2019)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1371/journal.pone.0224399"}], "href": "https://doi.org/10.1371/journal.pone.0224399"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "31689297"}], "href": "https://pubmed.ncbi.nlm.nih.gov/31689297"}]}, {"type": "r", "ref": 12, "children": [{"type": "t", "text": "Su Zhao, Hao Jiang, Jing Liu, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Comprehensive Analysis of Enhancer RNAs Identifies LINC00689 and ELFN1-AS1 as Novel Prognostic Biomarkers in Uveal Melanoma."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Dis Markers (2022)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1155/2022/5994800"}], "href": "https://doi.org/10.1155/2022/5994800"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "35251374"}], "href": "https://pubmed.ncbi.nlm.nih.gov/35251374"}]}, {"type": "r", "ref": 13, "children": [{"type": "t", "text": "Kyung-Won Min, Sylvia Davila, Richard W Zealy, et al. "}, {"type": "b", "children": [{"type": "t", "text": "eIF4E phosphorylation by MST1 reduces translation of a subset of mRNAs, but increases lncRNA translation."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Biochim Biophys Acta Gene Regul Mech (2017)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.bbagrm.2017.05.002"}], "href": "https://doi.org/10.1016/j.bbagrm.2017.05.002"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "28487214"}], "href": "https://pubmed.ncbi.nlm.nih.gov/28487214"}]}]}]}
NCBI Gene ID 154822
API
Download Associations
Predicted Functions View LINC00689's ARCHS4 Predicted Functions.
Co-expressed Genes View LINC00689's ARCHS4 Predicted Functions.
Expression in Tissues and Cell Lines View LINC00689's ARCHS4 Predicted Functions.

Functional Associations

LINC00689 has 809 functional associations with biological entities spanning 2 categories (cell line, cell type or tissue, gene, protein or microRNA) extracted from 11 datasets.

Click the + buttons to view associations for LINC00689 from the datasets below.

If available, associations are ranked by standardized value

Dataset Summary
Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles tissues with high or low expression of LINC00689 gene relative to other tissues from the Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles dataset.
Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq tissue samples with high or low expression of LINC00689 gene relative to other tissue samples from the Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq dataset.
Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles tissues with high or low expression of LINC00689 gene relative to other tissues from the Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles dataset.
CCLE Cell Line Gene CNV Profiles cell lines with high or low copy number of LINC00689 gene relative to other cell lines from the CCLE Cell Line Gene CNV Profiles dataset.
COSMIC Cell Line Gene CNV Profiles cell lines with high or low copy number of LINC00689 gene relative to other cell lines from the COSMIC Cell Line Gene CNV Profiles dataset.
GEO Signatures of Differentially Expressed Genes for Kinase Perturbations kinase perturbations changing expression of LINC00689 gene from the GEO Signatures of Differentially Expressed Genes for Kinase Perturbations dataset.
GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations transcription factor perturbations changing expression of LINC00689 gene from the GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations dataset.
GTEx Tissue Gene Expression Profiles tissues with high or low expression of LINC00689 gene relative to other tissues from the GTEx Tissue Gene Expression Profiles dataset.
GTEx Tissue Sample Gene Expression Profiles tissue samples with high or low expression of LINC00689 gene relative to other tissue samples from the GTEx Tissue Sample Gene Expression Profiles dataset.
Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles cell lines with high or low copy number of LINC00689 gene relative to other cell lines from the Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles dataset.
Roadmap Epigenomics Cell and Tissue DNA Methylation Profiles cell types and tissues with high or low DNA methylation of LINC00689 gene relative to other cell types and tissues from the Roadmap Epigenomics Cell and Tissue DNA Methylation Profiles dataset.