Transcript: FIRRE:1

Basic information

LNCipedia transcript ID: FIRRE:1 ?
HGNC Gene Symbol: FIRRE    ?
HGNC Full Gene Name: firre intergenic repeating RNA element
Location (hg19): chrX:130836678-130964671
Strand: -
Class: intergenic
Transcript size: 2928 bp
Exons: 13
Sources: Gencode v13; Ensembl release 68 - Jul 2012; NONCODE v4; Ensembl release 75 - Feb 2014; Refseq - Dec 2014; Ensembl release 83 - Dec 2015; Ensembl release 87 - Dec 2016
Alternative transcript names: ENST00000427391.1; RP11-453F18__B.1-001; OTTHUMT00000058303.1; NONHSAT138539; NR_026975
Alternative gene names: ENSG00000213468.3; RP11-453F18__B.1; OTTHUMG00000022417.1; FIRRE; LINC01200; ENSG00000213468.4

RNA sequence:


Protein coding potential

Metric Raw result Interpretation
PRIDE reprocessing 2.0 0 non-coding ?
Lee translation initiation sites 2 coding ?
Highest peak:14
PhyloCSF score 11.7125 non-coding ?
CPAT coding probability 95.34% coding ?
Bazzini small ORFs 0 non-coding ?
In stringent set: no

Locus conservation

Locus conservation?
FIRRE:1 no no

Secondary structure information

RNAfold image: download
Randfold minimum free energy: -1058.3
Randfold P-value: 0.001

Targetting miRNAs

No microRNA targets found with MirTarget2

Available literature

  1. Hacisuleyman (2016), Function and evolution of local repeats in the Firre locus., Nature communications
  2. Chapman (2015), Differentially methylated CpG island within human XIST mediates alternative P2 transcription and YY1 binding., BMC genetics
  3. Qiu (2015), Long non-coding RNA LINC01296 is a potential prognostic biomarker in patients with colorectal cancer., Tumour biology : the journal of the International Society for Oncodevelopmental Biology and Medicine
  4. Yang (2015), The lncRNA Firre anchors the inactive X chromosome to the nucleolus by binding CTCF and maintains H3K27me3 methylation., Genome biology
  5. Hacisuleyman (2014), Topological organization of multichromosomal regions by the long intergenic noncoding RNA Firre., Nature structural & molecular biology
  6. Luco (2014), The non-coding genome: a universe in expansion for fine-tuning the coding world., Genome biology

LNCipedia transcript ID history

LNCipedia version Deprecated transcript ID
3.1 lnc-FRMD7-1:1
4.0 FIRRE:1