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Aliases for FIRRE Gene

Subcategory (RNA class) for FIRRE Gene

non-coding RNA

Quality Score for this RNA gene is

3

Aliases for FIRRE Gene

  • Firre Intergenic Repeating RNA Element 2 3 5
  • Functional Intergenic Repeating RNA Element 2 3
  • Firre Intergenic RNA 2
  • LINC01200 3

External Ids for FIRRE Gene

Previous GeneCards Identifiers for FIRRE Gene

  • GC0XM130838

Summaries for FIRRE Gene

Entrez Gene Summary for FIRRE Gene

  • This gene produces a long RNA containing a repeating sequence. This RNA interacts with heterogeneous nuclear ribonucleoprotein U and coats chromosomes, where it plays an important role in the maintenance of repressive chromatin. This transcript can also act post-transcriptionally to regulate the stability of mRNAs during the innate immune response. [provided by RefSeq, Dec 2017]

GeneCards Summary for FIRRE Gene

FIRRE (Firre Intergenic Repeating RNA Element) is an RNA Gene, and is affiliated with the non-coding RNA class.

Additional gene information for FIRRE Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for FIRRE Gene

Genomics for FIRRE Gene

GeneHancer (GH) Regulatory Elements for FIRRE Gene

Promoters and enhancers for FIRRE 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
GH0XI131829 Promoter/Enhancer 1.7 Ensembl ENCODE dbSUPER 555.2 -0.3 -312 2.7 ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF766 ZNF143 PAF1 SP3 NFYC FIRRE FRMD7 GC0XP131839 GC0XP131840
GH0XI131791 Enhancer 1.3 Ensembl ENCODE dbSUPER 4.9 +37.9 37868 2.1 HDGF SIN3A FEZF1 IRF4 YY1 ZNF213 ELK1 ZNF143 ZNF207 ATF7 FIRRE GC0XP131789 MCRIP2P1
GH0XI131778 Enhancer 1.2 Ensembl ENCODE dbSUPER 5.2 +51.8 51811 1.4 CTCF ZNF76 ZNF384 RAD21 YY1 E2F1 FOXM1 CTBP1 SCRT2 ZNF207 FIRRE RAP2C GC0XP131789 PIR47283
GH0XI131783 Enhancer 1.2 Ensembl ENCODE dbSUPER 5.2 +46.8 46811 1.2 ZSCAN4 INSM2 KLF17 ZNF76 RAD21 ZNF207 ATF7 RCOR1 BCLAF1 ZNF654 FIRRE GC0XP131789 PIR47283
GH0XI131710 Enhancer 1.2 Ensembl ENCODE dbSUPER 4.9 +119.5 119486 1.1 CTCF ZNF384 RAD21 RELA FOXM1 GATA3 SCRT2 RCOR1 FOS BCLAF1 FIRRE PIR38861 PIR47283
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around FIRRE on UCSC Golden Path with GeneCards custom track

Genomic Locations for FIRRE Gene

Genomic Locations for FIRRE Gene
chrX:131,691,530-131,830,643
(GRCh38/hg38)
Size:
139,114 bases
Orientation:
Minus strand
chrX:130,836,678-130,964,671
(GRCh37/hg19)

Genomic View for FIRRE Gene

Genes around FIRRE on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for FIRRE Gene

Proteins for FIRRE Gene

Post-translational modifications for FIRRE Gene

No Post-translational modifications

No data available for DME Specific Peptides for FIRRE Gene

Domains & Families for FIRRE Gene

Gene Families for FIRRE Gene

Graphical View of Domain Structure for InterPro Entry

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

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for FIRRE Gene

Function for FIRRE Gene

Animal Model Products

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

Localization for FIRRE 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 FIRRE gene
Compartment Confidence
nucleus 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 FIRRE Gene

Pathways & Interactions for FIRRE Gene

SuperPathways for FIRRE Gene

No Data Available

Interacting Proteins for FIRRE Gene

Gene Ontology (GO) - Biological Process for FIRRE Gene

None

No data available for Pathways by source and SIGNOR curated interactions for FIRRE Gene

Drugs & Compounds for FIRRE Gene

No Compound Related Data Available

Transcripts for FIRRE Gene

mRNA/cDNA for FIRRE Gene

(8) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

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

No ASD Table

Relevant External Links for FIRRE Gene

GeneLoc Exon Structure for
FIRRE
ECgene alternative splicing isoforms for
FIRRE

Expression for FIRRE Gene

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

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

This gene is overexpressed in Pancreas (x6.8).

NURSA nuclear receptor signaling pathways regulating expression of FIRRE Gene:

FIRRE
genes like me logo Genes that share expression patterns with FIRRE: view

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 FIRRE Gene

Orthologs for FIRRE Gene

Evolution for FIRRE Gene

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

No data available for Orthologs for FIRRE Gene

Paralogs for FIRRE Gene

No data available for Paralogs for FIRRE Gene

Variants for FIRRE Gene

Sequence variations from dbSNP and Humsavar for FIRRE Gene

SNP ID Clin Chr 0X pos Variation AA Info Type
rs1000014000 -- 131,776,655(-) G/T intron_variant
rs1000087207 -- 131,767,108(-) A/G intron_variant
rs1000129982 -- 131,712,240(-) T/C intron_variant
rs1000130273 -- 131,768,278(-) T/C intron_variant
rs1000135449 -- 131,805,340(-) G/A intron_variant

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

Variant ID Type Subtype PubMed ID
nsv520989 CNV gain 19592680
nsv1150384 OTHER inversion 26484159
esv3577255 CNV gain 25503493
esv3437924 CNV insertion 20981092
esv3382666 CNV insertion 20981092
esv3308699 CNV mobile element insertion 20981092
esv3303402 CNV mobile element insertion 20981092
dgv4293n106 OTHER inversion 24896259
dgv2427e212 CNV loss 25503493

Additional Variant Information for FIRRE Gene

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

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for FIRRE Gene

Disorders for FIRRE Gene

Additional Disease Information for FIRRE

No disorders were found for FIRRE Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for FIRRE Gene

Publications for FIRRE Gene

  1. Topological organization of multichromosomal regions by the long intergenic noncoding RNA Firre. (PMID: 24463464) Hacisuleyman E … Rinn JL (Nature structural & molecular biology 2014) 2 3 58
  2. The NF-κB-Responsive Long Noncoding RNA FIRRE Regulates Posttranscriptional Regulation of Inflammatory Gene Expression through Interacting with hnRNPU. (PMID: 28993514) Lu Y … Zhou R (Journal of immunology (Baltimore, Md. : 1950) 2017) 3 58
  3. Function and evolution of local repeats in the Firre locus. (PMID: 27009974) Hacisuleyman E … Rinn JL (Nature communications 2016) 3 58
  4. Regulatory networks of non-coding RNAs in brown/beige adipogenesis. (PMID: 26283634) Xu S … Sun L (Bioscience reports 2015) 3 58
  5. The lncRNA Firre anchors the inactive X chromosome to the nucleolus by binding CTCF and maintains H3K27me3 methylation. (PMID: 25887447) Yang F … Disteche CM (Genome biology 2015) 3 58

Products for FIRRE Gene

Sources for FIRRE Gene

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