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

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

    Summary

    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
    NEW
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    Try the new Transcript table

    Genomic context

    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

    Expression

    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    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

    General gene information

    Markers

    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)

    NEW Try the new Transcript table

    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)