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, t... See more...

Aliases for FENDRR Gene

Subcategory (RNA class) for FENDRR Gene

lncRNA

Number of RNA Genes sources:

4 / 17

Aliases for FENDRR Gene

  • FOXF1 Adjacent Non-Coding Developmental Regulatory RNA 2 3 5
  • FENDRR 2 5 165
  • FOXF1 Antisense RNA 1 (Head To Head) 2 3
  • Onco-LncRNA-21 2 3
  • LincFOXF1 2 3
  • FOXF1 Antisense RNA 1 (Non-Protein Coding) 3
  • NONHSAG020218.2 91
  • TCONS_00024240 3
  • HSALNG0113305 164
  • HSALNG0113304 164
  • Lnc-MTHFSD-3 165
  • FOXF1-AS1 3
  • FOXF1AS1 3

External Ids for FENDRR Gene

Previous HGNC Symbols for FENDRR Gene

  • FOXF1-AS1

Summaries for FENDRR Gene

Entrez Gene Summary for FENDRR Gene

  • 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]

GeneCards Summary for FENDRR Gene

FENDRR (FOXF1 Adjacent Non-Coding Developmental Regulatory RNA) is an RNA Gene, and is affiliated with the lncRNA class. Diseases associated with FENDRR include Pulmonary Disease, Chronic Obstructive and Gallbladder Cancer.

Additional gene information for FENDRR Gene

No data available for CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for FENDRR Gene

Genomics for FENDRR Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for FENDRR Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH16J086491 Promoter/Enhancer 2.1 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 606.1 +4.3 4262 28.1 CTCF PRDM10 ZNF629 KDM1A ZNF692 FOXA1 PRDM1 ZIC2 ZSCAN4 POLR2A FOXF1 FENDRR MTHFSD LOC101928659 ENSG00000270184 RN7SL381P LINC00917 FOXC2 RNU1-103P ENSG00000270020
GH16J086759 Enhancer 0.5 Ensembl CraniofacialAtlas 4.7 -250.5 -250499 0.8 RNF2 EZH2 FOXC2 MTHFSD FENDRR LOC105371392 piR-38351-210 FOXL1 C16orf95
GH16J086466 Enhancer 1 FANTOM5 ENCODE dbSUPER 0.3 +41.9 41948 1.6 ZNF692 BRCA1 CEBPB CHD2 JUN RCOR1 GTF2F1 JUND MAX DEK MTHFSD ENSG00000270020 FOXF1 HSALNG0113302 FENDRR IRF8
GH16J086478 Enhancer 0.9 Ensembl ENCODE dbSUPER 0.3 +31.6 31598 1.4 CEBPB MAZ RAD21 SMC3 BHLHE40 STAT3 TBP MAFK ZNF768 KLF1 MTHFSD HSALNG0113302 FENDRR FOXF1 IRF8
GH16J086464 Enhancer 0.7 dbSUPER 0.3 +44.0 44041 1.3 CREB1 YBX1 ZNF776 ZNF747 ZNF311 ZNF792 ZNF211 ZNF157 ZKSCAN1 NFE2 MTHFSD RNU1-103P LOC101928659 ENSG00000270184 RN7SL381P EMC8 ENSG00000270020 HSALNG0113302 FENDRR FOXF1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around FENDRR on the GeneHancer Hub at the UCSC Golden Path

Genomic Locations for FENDRR Gene

Genomic Locations for FENDRR Gene
chr16:86,473,638-86,509,099
(GRCh38/hg38)
Size:
35,462 bases
Orientation:
Minus strand
chr16:86,508,131-86,542,705
(GRCh37/hg19)
Size:
34,575 bases
Orientation:
Minus strand

Genomic View for FENDRR Gene

Genes around FENDRR on UCSC Golden Path with GeneCards custom track
FENDRR in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Cytogenetic band:
FENDRR Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for FENDRR Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for FENDRR Gene

Proteins for FENDRR Gene

Post-translational modifications for FENDRR Gene

No Post-translational modifications

No data available for DME Specific Peptides for FENDRR Gene

Domains & Families for FENDRR Gene

Gene Families for FENDRR Gene

genes like me logo Genes that share domains with FENDRR: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for FENDRR Gene

Function for FENDRR Gene

Phenotypes From GWAS Catalog for FENDRR Gene

Phenotypes for FENDRR Gene

genes like me logo Genes that share phenotypes with FENDRR: view

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for FENDRR Gene

Localization for FENDRR Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for FENDRR gene
Compartment Confidence
nucleus 2
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1
cytosol 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for FENDRR Gene

Pathways & Interactions for FENDRR Gene

PathCards logo

SuperPathways for FENDRR Gene

No Data Available

Gene Ontology (GO) - Biological Process for FENDRR Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for FENDRR Gene

Drugs & Compounds for FENDRR Gene

No Compound Related Data Available

Transcripts for FENDRR Gene

Non-coding RNA (ncRNA) Transcripts from RNAcentral for FENDRR Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS0000759D4A_9606 lncRNA 3099 4

HGNC: 43894,

RefSeq: NR_033925,

LNCipedia: FENDRR:5,

NONCODE: NONHSAT144204.2,

URS0000618FE3_9606 lncRNA 553 4

Ensembl: ENST00000597578 (view in UCSC) ,

LncBook: HSALNT0234917,

LNCipedia: FENDRR:3,

NONCODE: NONHSAT144213.2,

URS00005498BE_9606 lncRNA 3095 3

Ensembl: ENST00000595886 (view in UCSC) ,

LncBook: HSALNT0234889,

LNCipedia: FENDRR:4,

URS000060A89F_9606 lncRNA 2843 3

Ensembl: ENST00000599749 (view in UCSC) ,

LNCipedia: FENDRR:1,

NONCODE: NONHSAT144212.2,

URS00001C5904_9606 lncRNA 602 3

Ensembl: ENST00000594398 (view in UCSC) ,

LNCipedia: FENDRR:9,

NONCODE: NONHSAT144214.2,

FENDRR in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for FENDRR Gene

7 NCBI additional mRNA sequence :

Alternative Splicing Database (ASD) splice patterns (SP) for FENDRR Gene

No ASD Table

Relevant External Links for FENDRR Gene

GeneLoc Exon Structure for
FENDRR

Expression for FENDRR Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for FENDRR Gene

mRNA differential expression in normal tissues according to GTEx for FENDRR Gene

This gene is overexpressed in Colon - Sigmoid (x9.1), Esophagus - Gastroesophageal Junction (x7.5), Esophagus - Muscularis (x6.8), Bladder (x6.1), and Lung (x4.4).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for FENDRR

SOURCE GeneReport for Unigene cluster for FENDRR Gene:

Hs.448825
genes like me logo Genes that share expression patterns with FENDRR: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for FENDRR Gene

Orthologs for FENDRR Gene

Evolution for FENDRR Gene

ENSEMBL:
Gene Tree for FENDRR (if available)
TreeFam:
Gene Tree for FENDRR (if available)

No data available for Orthologs for FENDRR Gene

Paralogs for FENDRR Gene

No data available for Paralogs for FENDRR Gene

Variants for FENDRR Gene

Additional dbSNP identifiers (rs#s) for FENDRR Gene

Structural Variations from Database of Genomic Variants (DGV) for FENDRR Gene

Variant ID Type Subtype PubMed ID
dgv498n67 CNV gain 20364138
esv2758666 CNV gain+loss 17122850
esv29890 CNV loss 19812545
esv3639482 CNV loss 21293372
esv4262 OTHER complex 18987735
nsv1065605 CNV gain 25217958
nsv1070778 CNV deletion 25765185
nsv1143828 CNV deletion 24896259
nsv483044 CNV gain 15286789
nsv510430 OTHER sequence alteration 20534489
nsv525024 CNV loss 19592680
nsv527579 CNV loss 19592680
nsv9468 CNV gain 18304495

Additional Variant Information for FENDRR Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
FENDRR

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP and Variation tolerance for FENDRR Gene

Disorders for FENDRR Gene

MalaCards: The human disease database

(7) MalaCards diseases for FENDRR Gene - From: LncRNADisease, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
pulmonary disease, chronic obstructive
  • copd
gallbladder cancer
  • gallbladder ca
gastric cancer
  • gastric cancer, somatic
lung cancer susceptibility 3
  • lncr3
osteogenic sarcoma
  • osteosarcoma; osrc
- elite association - COSMIC cancer census association via MalaCards
genes like me logo Genes that share disorders with FENDRR: view

No data available for UniProtKB/Swiss-Prot and Genatlas for FENDRR Gene

Publications for FENDRR Gene

  1. Multiple knockout mouse models reveal lincRNAs are required for life and brain development. (PMID: 24381249) Sauvageau M … Rinn JL (eLife 2013) 2 3
  2. Small noncoding differentially methylated copy-number variants, including lncRNA genes, cause a lethal lung developmental disorder. (PMID: 23034409) Szafranski P … Stankiewicz P (Genome research 2013) 2 3
  3. The tissue-specific lncRNA Fendrr is an essential regulator of heart and body wall development in the mouse. (PMID: 23369715) Grote P … Herrmann BG (Developmental cell 2013) 2 3
  4. Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression. (PMID: 19571010) Khalil AM … Rinn JL (Proceedings of the National Academy of Sciences of the United States of America 2009) 2 3
  5. 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. (PMID: 30981768) Gong F … Xu W (European journal of pharmacology 2019) 3

Products for FENDRR Gene

Sources for FENDRR Gene