LINC00599 Gene

HGNC Family Non-coding RNAs
Name long intergenic non-protein coding RNA 599
Description Predicted to act upstream of or within several processes, including long-term synaptic potentiation; miRNA-mediated post-transcriptional gene silencing; and sensory perception of sound. [provided by Alliance of Genome Resources, Mar 2025]
Summary
{"type": "root", "children": [{"type": "p", "children": [{"type": "t", "text": "\n LINC00599—also known as retinal non‐coding RNA3 (RNCR3)—has emerged as a multifunctional long non‐coding RNA that modulates cellular homeostasis in both the nervous and vascular systems. In the context of neural malignancies, studies have reported that dysregulation of LINC00599 is associated with brain tumor progression. For instance, in glioma, elevated LINC00599 expression correlates with increased proliferation, invasiveness, and poorer patient outcomes, and mechanistic investigations suggest that LINC00599 functions as a competing endogenous RNA (ceRNA) by sponging microRNAs such as miR‑185‑5p. This, in turn, influences downstream effectors like PAK7, an important regulator of axon guidance and tumorigenesis."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "1"}]}, {"type": "t", "text": " \n Although other reports in glioblastoma models indicate that increasing LINC00599 may suppress cell survival and induce apoptosis—pointing to context‐dependent roles in tumor biology"}, {"type": "fg", "children": [{"type": "fg_f", "ref": "3"}]}, {"type": "t", "text": "—the overall evidence highlights its involvement in regulating ceRNA networks that affect key signaling pathways linked to neural cell fate and proliferation.\n "}]}, {"type": "t", "text": "\n "}, {"type": "p", "children": [{"type": "t", "text": "\n Beyond cancer, genetic variations in LINC00599 have been implicated in non-neoplastic conditions. Polymorphism analyses have revealed significant associations between LINC00599 variants and susceptibility to hypoxia‐related disorders, such as high‐altitude pulmonary edema (HAPE)"}, {"type": "fg", "children": [{"type": "fg_f", "ref": "4"}]}, {"type": "t", "text": ", and with steroid-induced osteonecrosis of the femoral head (ONFH)."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "5"}]}, {"type": "t", "text": " These findings suggest that LINC00599 may contribute to pathogenesis by influencing cellular stress responses and tissue remodeling.\n "}]}, {"type": "t", "text": "\n "}, {"type": "p", "children": [{"type": "t", "text": "\n Collectively, current studies support a model in which LINC00599 acts as a regulatory hub—a ceRNA that modulates microRNA activity to fine-tune the expression of genes involved in axon guidance, cell proliferation, and apoptosis. Its dysregulation appears to promote neural tumor progression in certain contexts while genetic variability in LINC00599 is linked to vascular and musculoskeletal disorders. Thus, LINC00599 presents as a potential biomarker and therapeutic target in diseases ranging from glioma to hypoxia-related and steroid-induced conditions.\n "}]}, {"type": "rg", "children": [{"type": "r", "ref": 1, "children": [{"type": "t", "text": "Xuefeng Wang, Shuang Liu, Zhengkai Shao, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Bioinformatic analysis of the potential molecular mechanism of PAK7 expression in glioblastoma."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Mol Med Rep (2020)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.3892/mmr.2020.11206"}], "href": "https://doi.org/10.3892/mmr.2020.11206"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "32626960"}], "href": "https://pubmed.ncbi.nlm.nih.gov/32626960"}]}, {"type": "r", "ref": 2, "children": [{"type": "t", "text": "Bing Zhu, Shenyan Zhang, Ning Meng, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Long non-coding RNA RNCR3 promotes glioma progression involving the Akt/GSK-3β pathway."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Oncol Lett (2019)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.3892/ol.2019.11002"}], "href": "https://doi.org/10.3892/ol.2019.11002"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "31788110"}], "href": "https://pubmed.ncbi.nlm.nih.gov/31788110"}]}, {"type": "r", "ref": 3, "children": [{"type": "t", "text": "Liang Zhang, Yidong Cao, Minghao Wei, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Long noncoding RNA-RNCR3 overexpression deleteriously affects the growth of glioblastoma cells through miR-185-5p/Krüppel-like factor 16 axis."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "J Cell Biochem (2018)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1002/jcb.27167"}], "href": "https://doi.org/10.1002/jcb.27167"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "29953649"}], "href": "https://pubmed.ncbi.nlm.nih.gov/29953649"}]}, {"type": "r", "ref": 4, "children": [{"type": "t", "text": "Xue He, Jianwen Zheng, Yongjun He, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Long Non-coding RNA LINC-PINT and LINC00599 Polymorphisms are Associated With High-altitude Pulmonary Edema in Chinese."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Arch Bronconeumol (Engl Ed) (2020)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.arbres.2019.09.021"}], "href": "https://doi.org/10.1016/j.arbres.2019.09.021"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "31761491"}], "href": "https://pubmed.ncbi.nlm.nih.gov/31761491"}]}, {"type": "r", "ref": 5, "children": [{"type": "t", "text": "Menghu Sun, Yuju Cao, Tiantian Wang, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Association between LINC-PINT and LINC00599 gene polymorphism and the risk of steroid-induced osteonecrosis of the femoral head in the population of northern China."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Steroids (2021)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.steroids.2021.108886"}], "href": "https://doi.org/10.1016/j.steroids.2021.108886"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "34245766"}], "href": "https://pubmed.ncbi.nlm.nih.gov/34245766"}]}]}]}
Synonyms RNCR3
NCBI Gene ID 157627
API
Download Associations
Predicted Functions View LINC00599's ARCHS4 Predicted Functions.
Co-expressed Genes View LINC00599's ARCHS4 Predicted Functions.
Expression in Tissues and Cell Lines View LINC00599's ARCHS4 Predicted Functions.

Functional Associations

LINC00599 has 684 functional associations with biological entities spanning 5 categories (organism, disease, phenotype or trait, chemical, cell line, cell type or tissue, gene, protein or microRNA) extracted from 17 datasets.

Click the + buttons to view associations for LINC00599 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 LINC00599 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 LINC00599 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 LINC00599 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 LINC00599 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 LINC00599 gene relative to other cell lines from the COSMIC Cell Line Gene CNV Profiles dataset.
GEO Signatures of Differentially Expressed Genes for Diseases disease perturbations changing expression of LINC00599 gene from the GEO Signatures of Differentially Expressed Genes for Diseases dataset.
GEO Signatures of Differentially Expressed Genes for Gene Perturbations gene perturbations changing expression of LINC00599 gene from the GEO Signatures of Differentially Expressed Genes for Gene Perturbations dataset.
GEO Signatures of Differentially Expressed Genes for Kinase Perturbations kinase perturbations changing expression of LINC00599 gene from the GEO Signatures of Differentially Expressed Genes for Kinase Perturbations dataset.
GEO Signatures of Differentially Expressed Genes for Small Molecules small molecule perturbations changing expression of LINC00599 gene from the GEO Signatures of Differentially Expressed Genes for Small Molecules dataset.
GEO Signatures of Differentially Expressed Genes for Viral Infections virus perturbations changing expression of LINC00599 gene from the GEO Signatures of Differentially Expressed Genes for Viral Infections dataset.
GTEx Tissue Gene Expression Profiles tissues with high or low expression of LINC00599 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 LINC00599 gene relative to other tissue samples from the GTEx Tissue Sample Gene Expression Profiles dataset.
HuGE Navigator Gene-Phenotype Associations phenotypes associated with LINC00599 gene by text-mining GWAS publications from the HuGE Navigator Gene-Phenotype Associations dataset.
Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles cell lines with high or low copy number of LINC00599 gene relative to other cell lines from the Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles dataset.
LINCS L1000 CMAP CRISPR Knockout Consensus Signatures gene perturbations changing expression of LINC00599 gene from the LINCS L1000 CMAP CRISPR Knockout Consensus Signatures dataset.
MGI Mouse Phenotype Associations 2023 phenotypes of transgenic mice caused by LINC00599 gene mutations from the MGI Mouse Phenotype Associations 2023 dataset.
MotifMap Predicted Transcription Factor Targets transcription factors regulating expression of LINC00599 gene predicted using known transcription factor binding site motifs from the MotifMap Predicted Transcription Factor Targets dataset.