ENST00000602812.1

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Please cite: Chunlei Yu (2016) lncRNA: "ENST00000602812.1" in LncRNAWiki, available at http://lncrna.big.ac.cn/index.php?title=ENST00000602812.1&oldid=1271792 (Last update: Jun 25, 2016). [See details]

Ftx, a conserved functional long ncRNA, which located in the cis-acting regulatory region of the imprinted X-chromosome inactivation(XCI), is a positive regulator of Xist.

Contents

Annotated Information

Name

FTX, FTX transcript, XIST regulator (non-protein coding)(HGNC nomenclature)

"five prime to XIST", FLJ33139, LINC00182 [1]

Function

A model for Ftx action on Xist.[1]

Ftx is specifically upregulated during female ES cell differentiation at the onset of XCI. Loss of Ftx expression through the deletion of the promoter region leads to local alteration in the chromatin structure. More importantly, Ftx impacts on gene expression within theXic and in particular on Xist, as Xist is significantly downregulated in the absence of Ftx [1]. Disruption of Ftx did not affect the survival of female embryos or expression of Xist and other X-linked genes in the preimplantation female embryos, which indicates that Ftx is dispensable for imprinted XCI in preimplantation embryos [2].

Cellular Localization

Subcellular localization of Ftx transcripts.[1]

It produces a transcript with no apparent coding potential that predominantly remains in the nucleus [1].

Expression

FTX identified as chromatin-associated lncRNA was predominantly downregulated in breast tumor [3].

Evolution

Ftx is well conserved during evolution and contains several microRNAs (miRs) which are also conserved [3].

Labs working on this lncRNA

Unité de Génétique Moléculaire Murine, URA 2578, Institut Pasteur, Paris, France [1].

Department of Epigenetics, Medical Research Institute, Tokyo Medical & Dental University, 1-5-45 Yushima Bunkyo-ku, Tokyo, 113-8510, Japan [2].

Young Investigators Group Bioinformatics and Transcriptomics, Department Proteomics, Helmholtz Centre for Environmental Research - UFZ, Leipzig, Germany, and Department for Computer Science, University of Leipzig, Leipzig, Germany; RNomics Group, Department Diagnostics, Fraunhofer Institute for Cell Therapy and Immunology - IZI, Leipzig, Germany [3].

References

  1. 1.0 1.1 1.2 1.3 1.4 1.5 Chureau C, Chantalat S, Romito A, Galvani A, Duret L, Avner P, et al. Ftx is a non-coding RNA which affects Xist expression and chromatin structure within the X-inactivation center region[J]. Human molecular genetics. 2011,20(4):705-18.
  2. 2.0 2.1 Soma M, Fujihara Y, Okabe M, Ishino F, Kobayashi S. Ftx is dispensable for imprinted X-chromosome inactivation in preimplantation mouse embryos[J]. Scientific reports. 2014,4:5181.
  3. 3.0 3.1 3.2 Soma M, Fujihara Y, Okabe M, Ishino F, Kobayashi S. Ftx is dispensable for imprinted X-chromosome inactivation in preimplantation mouse embryos[J]. Scientific reports. 2014,4:5181.

Basic Information

Transcript ID

ENST00000602812.1

Source

Gencode19

Same with

NONHSAT137589,FTX,LINC00182, FLJ33139

Classification

intergenic

Length

2356 nt

Genomic location

chrX-:73247971..73513409

Exon number

7

Exons

73247971..73249386,73251431..73251675,73494177..73494245,73500229..73500329,73500766..73500920,73501537..73501683,73513187..73513409

Genome context

Sequence
000001 GGAAGCACAC TGCGGCGATT CTGGAGAGGT TGTCCTTTTC TGGCATCAGC GTTGCGGCTC GAGGCAAAGC TGGTCCTGTG 000080
000081 CCTGCTGTCC ATTGCCGCTA AGGCCTGCTG CTGCCATTCA GGCGTGTCTC TCTCTCTCTC TCTCTTTCAT GCCGCTCTCT 000160
000161 CCACCCCATC TTGGGACGGC CAGCTCTAAG AATTCCTGCT ACGACACTGA ATTCAACCAG GAGGTGATGC CACACTCAAT 000240
000241 CAGAAACTAT GCTACTGCTG AAGAGGTATA TTGAGCCCTG CCTGGTTAAC CTCCAGTGAG GTTATTAGAG AATTGGGAGA 000320
000321 GGCTCAAATC AGCATCCTGC ACCTAGTTAT CAAACCATTG TGAAGTCTTG ATTCCTGGAT GGCCAGAAAA CTTGTCATTG 000400
000401 GTCAAGAGCA ACATTAAGAT CTGCCTGTTA CTCATACTGA TGCTTCCTGC CCAGCAAGTT CATCAGAGGG CGAGGATGAA 000480
000481 TTACGGTTGC CATGAATGTC CTTGTGAGGC AGTTGGGAAG CCTTGGCTGG ATTGTGAAGG ATATTTGAAA AGTATTTTAG 000560
000561 AGTCCACCAG ATCATCCATG TGAGTGACCA TGCAGCAAAA GAAGGAGGGT CCTCTCAGTG ATTAAGGATT ATGAAGTATT 000640
000641 AATTCTTCCA CTGATATCTC AAAAGGTGAT CTGGACAAAG GAACAGGTAT CTCAGGATTC CTCCTTGGTC ACTTTTCAGC 000720
000721 AGCAGCCTGC TCTTCTTTTG CAATCTCTTC AGGATCTCTG TAGAAGTAGA GATCAGGCAT GAACTCCCAC GGGTGTTCAC 000800
000801 GGGAAATGGT GCCACGCATG CGCAGAACTT CCCGAGCCAG CATCCACCAC ATCAAACCCA CTGAGTGAGC TCCCTTGTTG 000880
000881 TTGCATGGGA TGGCAATGTC CACGTATCAC AGAGGAGAAT CTGTGTTACA CAGAGCAATG TAGAGACGGG GTTTCACCGT 000960
000961 GTTAGCCAGG ATGGTCTCGA TCTCCTGACC TCATGATCCA CCCGCCTTGG CCTCCCAAAG TGCTGGGATT ACAGGCGTGA 001040
001041 ACCACCGCGC CCGGCCAGGA GAGTGTATTT TCTACACATA AGTTCAGGTC ATCTCCACAC AGACCCAGTT TGCCTCCCTC 001120
001121 TTTTCCGATC TGAATGCCTT TAATTTCCTT CTCTTGCCTA ACTGTACTGG CTAGAACATC CCGAACTAGG TTGAATGAGG 001200
001201 TGCTGAGAGT GGGCATAATT GGCTTCTTTA CCTCCGAAGA AAATATTTCA TGTTTTCTTC ATTGATTATG ATGTTAGTTG 001280
001281 TGGGTATTTC ATTTACTGCC TATATGGTAT AAAGATACAT TCCTTCTATG CCTAATTGGT TGACAGCTTT TATTATATCA 001360
001361 AATTCTATAA AACTGTTTTA TTTTTAAATC TATTGAGATG ATCAAATGGC GGTGTCCCTC CTCCTTTATA AGACTATTTA 001440
001441 AAACATCCTT GCCTCAGAGG GACAAATCCC ATTTGAACAT GGCAAGTAAT CCTCTTAATA TAAAGTGGAA TTAGGTTTGA 001520
001521 CAGAAATTAC CAGTGAAGCA CTATGGGCAT ATATTTGATA GGAGATTTTT ATTATGGATA CAATTTACTT GTTATTGGTC 001600
001601 TCTTCAGATA TTCTTTCTCA TGACTGGATT TGCGTACGTT GTATGAGTAC AAATTTTTTC ATTTATTCTA CGCTGCTCTT 001680
001681 TATTATATGC TTCCTTCTGT AAAATTTGGA CTGTTTGTTC TTCCCATTAT ATTAATAGTT GCTTCAGGTG TAACATAAGG 001760
001761 TTATTTTTTA AGTACTTTTC TGGTATCACA AATATTGGTG TTTTGTGTTT CATCTTTCAT TTGTCAAAAT ATTTTTTAAC 001840
001841 TTCCATTTGG ATTTAATGAT TCACCCATTC ATTATTCAAA AGCATATTGT TTAATTTCTA TGTGTTTGTG AACATTCTAA 001920
001921 TGTTCATTCT ACTAATAGTT CCTAGGTTCA TGCAATGTGC TTAAAAATGT GGTATAATTT CTGTATTATT AAATGTAAAA 002000
002001 CTAGTCTTGA TTCGTAACAT AAGGCCTACG CAAAGATCCA TCTTCTGCAG AGAAGAATGT AGATTGTGCC GCTGTTAGAC 002080
002081 GAAGTATTCT GTATACGTCA GTTTGCTTTA TTTGGCATAA AGTGTAGTGT AAGCCAGATG TAGTGTAAGT CAGATCCAGA 002160
002161 TGATCTGCCC ATTGCTGAAA CTTCAGTACT TAAGTCCCCT ATTATTATTG TATGGCAATC TATCTGTCCA CTCAGAAGTT 002240
002241 ATTATATTTG TTTTATATGA TTGAGCACTT CTGTTTTGGG TATATATGTA TTTACAATTA CTATAACCTC TTGCTGAATT 002320
002321 AACCCCTTTT ACCATTATGT AATAAACTTA TTTCCC
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Please cite: Chunlei Yu (2016) lncRNA: "ENST00000602812.1" in LncRNAWiki, available at http://lncrna.big.ac.cn/index.php?title=ENST00000602812.1&oldid=1271792 (Last update: Jun 25, 2016).
ContributorContribution Score*Edit Count#Summed Edit QuantityΛAveraged Edit QualityLatest Edit TimeEdit Details
Chunlei Yu2.6541265412016-06-25 14:24:47[show]
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