FENDRR Gene

HGNC Family Non-coding RNAs
Name FOXF1 adjacent non-coding developmental regulatory RNA
Description This gene produces a spliced long non-coding RNA transcribed bidirectionally with FOXF1 on the opposite strand. A similar gene in mouse is essential for normal development of the heart and body wall. The encoded transcript is thought to act by binding to polycomb repressive complex 2 (PRC2) and/or TrxG/MLL complexes to promote the methylation of the promoters of target genes, thus reducing their expression. It has been suggested that this transcript may play a role in the progression of gastric cancer. Alternatively spliced transcript variants have been identified. [provided by RefSeq, Mar 2015]
Summary
{"type": "root", "children": [{"type": "p", "children": [{"type": "t", "text": "\n FENDRR, a long noncoding RNA originally discovered in lateral mesoderm, plays critical roles in both embryonic development and cancer suppression. During organogenesis, FENDRR modulates chromatin signatures by binding to key histone‐modifying complexes—including Polycomb Repressive Complex 2 (PRC2) and Trithorax/MLL complexes—to balance repressive (H3K27me3) and active (H3K4me3) histone marks at promoters of developmental genes required for proper heart and body wall formation."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "1"}]}, {"type": "t", "text": "\n "}]}, {"type": "t", "text": "\n "}, {"type": "p", "children": [{"type": "t", "text": "\n In various cancers, FENDRR is frequently downregulated and its low expression is associated with increased tumor aggressiveness and poorer clinical outcomes. For example, in prostate cancer, FENDRR acts in a tumor‐suppressive manner by sponging oncogenic miR-18a-5p, thereby permitting upregulation of the tumor suppressor RUNX1; similarly, in non-small cell lung cancer, FENDRR inhibits cell proliferation, migration, invasion, and stem-like properties by binding to miR-761 and modulating TIMP2 expression."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "3"}]}, {"type": "t", "text": " In addition, FENDRR counteracts cancer cell stemness through its interference with miRNA regulatory pathways (e.g. affecting MDR1 expression via interaction with RNA binding proteins)"}, {"type": "fg", "children": [{"type": "fg_f", "ref": "5"}]}, {"type": "t", "text": ", and in cholangiocarcinoma its interaction with SETDB1 promotes repressive H3K9 methylation on the survivin promoter to curb tumor cell proliferation and invasion."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "6"}]}, {"type": "t", "text": "\n "}]}, {"type": "t", "text": "\n "}, {"type": "p", "children": [{"type": "t", "text": "\n Furthermore, post-transcriptional modifications influence FENDRR stability; in endometrioid endometrial carcinoma, increased m<sup>6</sup>A methylation mediated by the reader YTHDF2 accelerates its degradation, thereby impacting downstream targets such as SOX4 and promoting cell proliferation."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "7"}]}, {"type": "t", "text": " Collectively, these studies support a dual role for FENDRR: it not only guides embryonic patterning and organogenesis via epigenetic regulation but also functions as a tumor suppressor by interfering with oncogenic and stemness-related pathways. This multifaceted regulatory capacity makes FENDRR a promising prognostic biomarker and therapeutic target in diverse pathological contexts.\n "}]}, {"type": "rg", "children": [{"type": "r", "ref": 1, "children": [{"type": "t", "text": "Phillip Grote, Lars Wittler, David Hendrix, et al. "}, {"type": "b", "children": [{"type": "t", "text": "The tissue-specific lncRNA Fendrr is an essential regulator of heart and body wall development in the mouse."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Dev Cell (2013)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.devcel.2012.12.012"}], "href": "https://doi.org/10.1016/j.devcel.2012.12.012"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "23369715"}], "href": "https://pubmed.ncbi.nlm.nih.gov/23369715"}]}, {"type": "r", "ref": 2, "children": [{"type": "t", "text": "Phillip Grote, Bernhard G Herrmann "}, {"type": "b", "children": [{"type": "t", "text": "The long non-coding RNA Fendrr links epigenetic control mechanisms to gene regulatory networks in mammalian embryogenesis."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "RNA Biol (2013)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.4161/rna.26165"}], "href": "https://doi.org/10.4161/rna.26165"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "24036695"}], "href": "https://pubmed.ncbi.nlm.nih.gov/24036695"}]}, {"type": "r", "ref": 3, "children": [{"type": "t", "text": "Guanying Zhang, Guangye Han, Xinjun Zhang, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Long non-coding RNA FENDRR reduces prostate cancer malignancy by competitively binding miR-18a-5p with RUNX1."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Biomarkers (2018)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1080/1354750X.2018.1443509"}], "href": "https://doi.org/10.1080/1354750X.2018.1443509"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "29465000"}], "href": "https://pubmed.ncbi.nlm.nih.gov/29465000"}]}, {"type": "r", "ref": 4, "children": [{"type": "t", "text": "Guifang Xu, Bin Zhang, Jiahui Ye, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Exosomal miRNA-139 in cancer-associated fibroblasts inhibits gastric cancer progression by repressing MMP11 expression."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Int J Biol Sci (2019)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.7150/ijbs.33750"}], "href": "https://doi.org/10.7150/ijbs.33750"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "31595150"}], "href": "https://pubmed.ncbi.nlm.nih.gov/31595150"}]}, {"type": "r", "ref": 5, "children": [{"type": "t", "text": "Fangchao Gong, Dong Dong, Ting Zhang, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Long non-coding RNA FENDRR attenuates the stemness of non-small cell lung cancer cells via decreasing multidrug resistance gene 1 (MDR1) expression through competitively binding with RNA binding protein HuR."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Eur J Pharmacol (2019)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.ejphar.2019.04.022"}], "href": "https://doi.org/10.1016/j.ejphar.2019.04.022"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "30981768"}], "href": "https://pubmed.ncbi.nlm.nih.gov/30981768"}]}, {"type": "r", "ref": 6, "children": [{"type": "t", "text": "Xinglei Qin, Min Lu, Yajun Zhou, et al. "}, {"type": "b", "children": [{"type": "t", "text": "LncRNA FENDRR represses proliferation, migration and invasion through suppression of survivin in cholangiocarcinoma cells."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Cell Cycle (2019)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1080/15384101.2019.1598726"}], "href": "https://doi.org/10.1080/15384101.2019.1598726"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "30983519"}], "href": "https://pubmed.ncbi.nlm.nih.gov/30983519"}]}, {"type": "r", "ref": 7, "children": [{"type": "t", "text": "Jie Shen, Xiao-Ping Feng, Ru-Bing Hu, et al. "}, {"type": "b", "children": [{"type": "t", "text": "N-methyladenosine reader YTHDF2-mediated long noncoding RNA FENDRR degradation promotes cell proliferation in endometrioid endometrial carcinoma."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Lab Invest (2021)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1038/s41374-021-00543-3"}], "href": "https://doi.org/10.1038/s41374-021-00543-3"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "33692441"}], "href": "https://pubmed.ncbi.nlm.nih.gov/33692441"}]}]}]}
Synonyms FOXF1AS1, TCONS_00024240, LINCFOXF1, FOXF1-AS1, onco-lncRNA-21
NCBI Gene ID 400550
API
Download Associations
Predicted Functions View FENDRR's ARCHS4 Predicted Functions.
Co-expressed Genes View FENDRR's ARCHS4 Predicted Functions.
Expression in Tissues and Cell Lines View FENDRR's ARCHS4 Predicted Functions.

Functional Associations

FENDRR has 784 functional associations with biological entities spanning 4 categories (chemical, disease, phenotype or trait, cell line, cell type or tissue, gene, protein or microRNA) extracted from 14 datasets.

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

If available, associations are ranked by standardized value

Dataset Summary
CCLE Cell Line Gene CNV Profiles cell lines with high or low copy number of FENDRR 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 FENDRR gene relative to other cell lines from the COSMIC Cell Line Gene CNV Profiles dataset.
GEO Signatures of Differentially Expressed Genes for Gene Perturbations gene perturbations changing expression of FENDRR gene from the GEO Signatures of Differentially Expressed Genes for Gene Perturbations dataset.
GEO Signatures of Differentially Expressed Genes for Small Molecules small molecule perturbations changing expression of FENDRR gene from the GEO Signatures of Differentially Expressed Genes for Small Molecules dataset.
GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations transcription factor perturbations changing expression of FENDRR 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 FENDRR 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 FENDRR gene relative to other tissue samples from the GTEx Tissue Sample Gene Expression Profiles dataset.
GWAS Catalog SNP-Phenotype Associations phenotypes associated with FENDRR gene in GWAS datasets from the GWAS Catalog SNP-Phenotype Associations dataset.
HuBMAP Azimuth Cell Type Annotations cell types associated with FENDRR gene from the HuBMAP Azimuth Cell Type Annotations dataset.
Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles cell lines with high or low copy number of FENDRR gene relative to other cell lines from the Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles dataset.
MGI Mouse Phenotype Associations 2023 phenotypes of transgenic mice caused by FENDRR gene mutations from the MGI Mouse Phenotype Associations 2023 dataset.
MotifMap Predicted Transcription Factor Targets transcription factors regulating expression of FENDRR gene predicted using known transcription factor binding site motifs from the MotifMap Predicted Transcription Factor Targets dataset.
MPO Gene-Phenotype Associations phenotypes of transgenic mice caused by FENDRR gene mutations from the MPO Gene-Phenotype Associations dataset.
Roadmap Epigenomics Cell and Tissue DNA Methylation Profiles cell types and tissues with high or low DNA methylation of FENDRR gene relative to other cell types and tissues from the Roadmap Epigenomics Cell and Tissue DNA Methylation Profiles dataset.