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    FENDRR FOXF1 adjacent non-coding developmental regulatory RNA [ Homo sapiens (human) ]

    Gene ID: 400550, updated on 10-Dec-2024

    Summary

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    Official Symbol
    FENDRRprovided by HGNC
    Official Full Name
    FOXF1 adjacent non-coding developmental regulatory RNAprovided by HGNC
    Primary source
    HGNC:HGNC:43894
    See related
    Ensembl:ENSG00000268388 MIM:614975; AllianceGenome:HGNC:43894
    Gene type
    ncRNA
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    FOXF1AS1; FOXF1-AS1; lincFOXF1; TCONS_00024240; onco-lncRNA-21
    Summary
    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]
    Expression
    Biased expression in lung (RPKM 13.0), urinary bladder (RPKM 9.3) and 9 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See FENDRR in Genome Data Viewer
    Location:
    16q24.1
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (86474525..86508860, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (92542762..92577081, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (86508131..86542466, complement)

    Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene Sharpr-MPRA regulatory region 8769 Neighboring gene long intergenic non-protein coding RNA 917 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:86393693-86394193 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_46360 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:86410784-86411320 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_46362 Neighboring gene LINC00917-FENDRR intergenic CAGE-defined mid-level expression enhancer Neighboring gene VISTA enhancer hs1 Neighboring gene Sharpr-MPRA regulatory region 1422 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:86466900-86467129 Neighboring gene chloride intracellular channel 1 pseudogene Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr16:86499943-86501142 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:86531905-86532529 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:86534107-86534663 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:86545626-86546392 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:86555369-86555869 Neighboring gene forkhead box F1 Neighboring gene ribosomal protein L7a pseudogene 63

    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. An integrated analysis of the competing endogenous RNA network associated of prognosis of stage I lung adenocarcinoma. Xu Y, et al. BMC Cancer, 2022 Feb 19. PMID 35183135, Free PMC Article
    2. Decreased expression of the long non-coding RNA FENDRR is associated with poor prognosis in gastric cancer and FENDRR regulates gastric cancer cell metastasis by affecting fibronectin1 expression. Xu TP, et al. J Hematol Oncol, 2014 Aug 29. PMID 25167886, Free PMC Article
    3. LncRNA FENDRR Expression Correlates with Tumor Immunogenicity. Munteanu MC, et al. Genes (Basel), 2021 Jun 10. PMID 34200642, Free PMC Article
    4. Long non-coding RNA FENDRR regulates proliferation, apoptosis and migration in high-glucose-induced human retinal endothelial cells via targeting miR-384/RHOA axis. Gao R, et al. Minerva Med, 2023 Jun. PMID 33764715
    5. FENDRR: A pivotal, cancer-related, long non-coding RNA. Zheng Q, et al. Biomed Pharmacother, 2021 May. PMID 33761608

    See all (35) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Long non-coding RNA FENDRR regulates proliferation, apoptosis and migration in high-glucose-induced human retinal endothelial cells via targeting miR-384/RHOA axis.
      Title: Long non-coding RNA FENDRR regulates proliferation, apoptosis and migration in high-glucose-induced human retinal endothelial cells via targeting miR-384/RHOA axis.
    2. The Emerging Role of LncRNA FENDRR in Multiple Cancers: A Review.
      Title: The Emerging Role of LncRNA FENDRR in Multiple Cancers: A Review.
    3. An integrated analysis of the competing endogenous RNA network associated of prognosis of stage I lung adenocarcinoma.
      Title: An integrated analysis of the competing endogenous RNA network associated of prognosis of stage I lung adenocarcinoma.
    4. Long non-coding RNA FENDRR inhibits the stemenss of colorectal cancer cells through directly binding to Sox2 RNA.
      Title: Long non-coding RNA FENDRR inhibits the stemenss of colorectal cancer cells through directly binding to Sox2 RNA.
    5. Lung-specific distant enhancer cis regulates expression of FOXF1 and lncRNA FENDRR.
      Title: Lung-specific distant enhancer cis regulates expression of FOXF1 and lncRNA FENDRR.
    6. FENDRR Sponges miR-424-5p to Inhibit Cell Proliferation, Migration and Invasion in Colorectal Cancer.
      Title: FENDRR Sponges miR-424-5p to Inhibit Cell Proliferation, Migration and Invasion in Colorectal Cancer.
    7. LncRNA FENDRR Expression Correlates with Tumor Immunogenicity.
      Title: LncRNA FENDRR Expression Correlates with Tumor Immunogenicity.
    8. Integrated Analysis of lncRNAs and mRNAs Identifies a Potential Driver lncRNA FENDRR in Lung Cancer in Xuanwei, China.
      Title: Integrated Analysis of lncRNAs and mRNAs Identifies a Potential Driver lncRNA FENDRR in Lung Cancer in Xuanwei, China.
    9. Long Noncoding RNA FENDRR Inhibits Lung Fibroblast Proliferation via a Reduction of beta-Catenin.
      Title: Long Noncoding RNA FENDRR Inhibits Lung Fibroblast Proliferation via a Reduction of β-Catenin.
    10. N-methyladenosine reader YTHDF2-mediated long noncoding RNA FENDRR degradation promotes cell proliferation in endometrioid endometrial carcinoma.
      Title: N-methyladenosine reader YTHDF2-mediated long noncoding RNA FENDRR degradation promotes cell proliferation in endometrioid endometrial carcinoma.
    Submit: New GeneRIF Correction See all GeneRIFs (26)

    Phenotypes

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    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

    Description
    Genome-wide SNP and CNV analysis identifies common and low-frequency variants associated with severe early-onset obesity.
    EBI GWAS Catalog

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    General gene information

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    Markers

    Homology

    Other Names

    • FOXF1 antisense RNA 1 (head to head)
    • FOXF1 antisense RNA 1 (non-protein coding)

    Clone Names

    • FLJ34515, FLJ39993, DKFZp666B056, DKFZp686B02156

    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_033925.1 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript.
      Source sequence(s)
      AC009108, AC125792, AK091834, BQ671983
      Related
      ENST00000595886.1

    2. NR_036444.1 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) shares the first exon with variant 1, but has an alternate combination of 3' exons.
      Source sequence(s)
      AC009108, AK091834, CB049925
      Related
      ENST00000599749.5

    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_000016.10 Reference GRCh38.p14 Primary Assembly

      Range
      86474525..86508860 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060940.1 Alternate T2T-CHM13v2.0

      Range
      92542762..92577081 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

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    Research Materials