Free for academic non-profit institutions. Other users need a Commercial license

Aliases for FIRRE Gene

Subcategory (RNA class) for FIRRE Gene

non-coding RNA

Quality Score for this RNA gene is


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

GeneCards Summary for FIRRE Gene

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

Additional gene information for FIRRE Gene

No data available for Entrez Gene Summary , 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

Regulatory Elements for FIRRE Gene

Enhancers for FIRRE Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH0XH131783 1.4 Ensembl ENCODE dbSUPER 5.2 +46.8 46812 1.2 TBL1XR1 ZSCAN4 INSM2 ZNF76 KLF17 RAD21 ZNF207 ATF7 RCOR1 CREM FIRRE GC0XP131789 PIR47283
GH0XH131791 1.4 Ensembl ENCODE dbSUPER 4.9 +37.9 37868 2.1 HDGF SIN3A FEZF1 YY1 ELK1 ZNF143 ZNF207 ATF7 RUNX3 SP3 FIRRE GC0XP131789 MCRIP2P1
GH0XH131778 1.3 Ensembl ENCODE dbSUPER 5.2 +51.8 51812 1.4 CTCF ZNF76 ZNF384 RAD21 YY1 FOXM1 E2F1 CTBP1 SCRT2 ZNF143 FIRRE RAP2C GC0XP131789 PIR47283
GH0XH131829 1.3 ENCODE dbSUPER 5.1 -0.3 -319 2.7 ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF766 ZNF143 PAF1 SP3 NFYC FIRRE FRMD7 GC0XP131840 GC0XP131839
GH0XH131710 1.3 Ensembl ENCODE dbSUPER 4.9 +119.5 119486 1.1 RAD21 SCRT2 FOS RCOR1 CREM ZNF654 HCFC1 ELF1 ZNF592 ZNF217 FIRRE PIR38861 PIR47283
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around FIRRE on UCSC Golden Path with GeneCards custom track

Promoters for FIRRE Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000248798 142 1800 ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF766 ZNF143 PAF1 SP3 NFYC

Genomic Locations for FIRRE Gene

Genomic Locations for FIRRE Gene
139,114 bases
Minus strand

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

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


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
ECgene alternative splicing isoforms for

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:

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

Gene Tree for FIRRE (if available)
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 Sequence Context AA Info Type
rs1000014000 -- 131,776,655(+) AGATA(G/T)GCAAT intron-variant
rs1000087207 -- 131,767,108(+) CATGG(A/G)GAAAT intron-variant
rs1000129982 -- 131,712,240(+) GCACC(C/T)TGTGA intron-variant
rs1000130273 -- 131,768,278(+) TTCAA(C/T)TGCTA intron-variant
rs1000135449 -- 131,805,340(+) TGTTG(A/G)CCAGG 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

Relevant External Links for FIRRE Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

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

Disorders for FIRRE Gene

MalaCards: The human disease database

(1) MalaCards diseases for FIRRE Gene - From: DISEASES

Disorder Aliases PubMed IDs
heterotopia, periventricular
  • periventricular nodular heterotopia
- elite association - COSMIC cancer census association via MalaCards
Search FIRRE in MalaCards View complete list of genes associated with diseases

Relevant External Links for FIRRE

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
genes like me logo Genes that share disorders with FIRRE: view

No data available for 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 60
  2. 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 60
  3. Regulatory networks of non-coding RNAs in brown/beige adipogenesis. (PMID: 26283634) Xu S … Sun L (Bioscience reports 2015) 3 60
  4. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. (PMID: 22658674) Castello A … Hentze MW (Cell 2012) 3 60
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 60

Products for FIRRE Gene

Sources for FIRRE Gene

Loading form....