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Tsix X (inactive)-specific transcript, opposite strand [ Mus musculus (house mouse) ]

Gene ID: 22097, updated on 21-Apr-2024

Summary

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Official Symbol
Tsixprovided by MGI
Official Full Name
X (inactive)-specific transcript, opposite strandprovided by MGI
Primary source
MGI:MGI:1336196
See related
Ensembl:ENSMUSG00000085715 AllianceGenome:MGI:1336196
Gene type
ncRNA
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Summary
Acts upstream of or within epigenetic maintenance of chromatin in transcription-competent conformation; inactivation of paternal X chromosome; and negative regulation of transcription by RNA polymerase II. Is expressed in several structures, including early conceptus; liver; and retina nuclear layer. Orthologous to human TSIX (TSIX transcript, XIST antisense RNA). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in limb E14.5 (RPKM 6.6), thymus adult (RPKM 5.0) and 20 other tissues See more
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Genomic context

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Location:
X D; X 46.13 cM
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) X NC_000086.8 (102475123..102528563)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (103431517..103484957)

Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_47688 Neighboring gene predicted gene 9516 Neighboring gene cysteine-rich hydrophobic domain 1 Neighboring gene testis specific X-linked gene Neighboring gene STARR-seq mESC enhancer starr_47691 Neighboring gene origin of replication in Tsix Neighboring gene origin of replication in exon 1 of Xist Neighboring gene inactive X specific transcripts Neighboring gene ribosomal protein S12, pseudogene 1 Neighboring gene predicted gene 14861

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. LncRNA TSIX promotes osteoblast apoptosis in particle-induced osteolysis by down-regulating miR-30a-5p. Bu Y, et al. Connect Tissue Res, 2018 Nov. PMID 29260905
  2. The DXPas34 repeat regulates random and imprinted X inactivation. Cohen DE, et al. Dev Cell, 2007 Jan. PMID 17199041
  3. [Without Tsix, male X chromosome is inactivated]. Vigneau S, et al. Med Sci (Paris), 2006 Nov. PMID 17101091
  4. An essential role for the DXPas34 tandem repeat and Tsix transcription in the counting process of X chromosome inactivation. Vigneau S, et al. Proc Natl Acad Sci U S A, 2006 May 9. PMID 16648248, Free PMC Article
  5. Identification of developmentally specific enhancers for Tsix in the regulation of X chromosome inactivation. Stavropoulos N, et al. Mol Cell Biol, 2005 Apr. PMID 15767680, Free PMC Article

See all (79) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. LncRNA TSIX aggravates spinal cord injury by regulating the PI3K/AKT pathway via the miR-532-3p/DDOST axis.
    Title: LncRNA TSIX aggravates spinal cord injury by regulating the PI3K/AKT pathway via the miR-532-3p/DDOST axis.
  2. Dynamics of transcription-mediated conversion from euchromatin to facultative heterochromatin at the Xist promoter by Tsix.
    Title: Dynamics of transcription-mediated conversion from euchromatin to facultative heterochromatin at the Xist promoter by Tsix.
  3. Inhibition of long non-coding RNA TSIX accelerates tibia fraction healing via binding and positively regulating the SOX6 expression.
    Title: Inhibition of long non-coding RNA TSIX accelerates tibia fraction healing via binding and positively regulating the SOX6 expression.
  4. TSIX played a pivotal role in particle-induced osteolysis development by negatively regulating miR-30a-5p.
    Title: LncRNA TSIX promotes osteoblast apoptosis in particle-induced osteolysis by down-regulating miR-30a-5p.
  5. antagonistic roles for Tsix on Xist and vice versa and indicate the presence of semistable transcriptional states of the X inactivation cente locus predicting the outcome of X chromosome inactivation.
    Title: Xist and Tsix Transcription Dynamics Is Regulated by the X-to-Autosome Ratio and Semistable Transcriptional States.
  6. In late preimplantation, Oct4 served as a chromatin opener to create transcriptional permissive states at Xm-Xist/Tsix genomic loci. In parthenogenetic embryos, Rnf12 overdose caused Xm-Xist derepression via Xm-Tsix repression; physiological Rnf12 levels were essential for Xm-Xist silencing maintenance in fertilized embryos.
    Title: Maintenance of Xist Imprinting Depends on Chromatin Condensation State and Rnf12 Dosage in Mice.
  7. These unexpected transcriptional regulations of the Xist locus call for a re-evaluation of the early functioning of the maternal imprint on the X-chromosome and suggest that Xist/Tsix antagonist transcriptional activities may participate in imprinting
    Title: Antagonist Xist and Tsix co-transcription during mouse oogenesis and maternal Xist expression during pre-implantation development calls into question the nature of the maternal imprint on the X chromosome.
  8. the H3K27-specific demethylase Utx regulates the expression of the master regulators for XCI and XCR: Prdm14, Tsix, and Xist.
    Title: Histone demethylation maintains Prdm14 and Tsix expression and represses xIst in embryonic stem cells.
  9. The study identified histone H3 lysine 36 trimethylation (H3K36me3) as a modification that is recruited by Tsix cotranscriptionally and extends over the Xist promoter.
    Title: Histone H3 Lysine 36 Trimethylation Is Established over the Xist Promoter by Antisense Tsix Transcription and Contributes to Repressing Xist Expression.
  10. Tsix is dispensable for inhibiting Xist and X-inactivation in the early embryo and in cultured stem cells.
    Title: Differentiation-dependent requirement of Tsix long non-coding RNA in imprinted X-chromosome inactivation.
Submit: New GeneRIF Correction See all GeneRIFs (37)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Other Names

  • X (inactive)-specific transcript, antisense
  • antisense of Xist

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein-containing complex binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within inactivation of paternal X chromosome by genomic imprinting IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within inactivation of paternal X chromosome by genomic imprinting IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within transcription initiation-coupled chromatin remodeling IMP
Inferred from Mutant Phenotype
more info
 PubMed 

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

RNA

  1. NR_002844.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL669964
    Related
    ENSMUST00000152916.2

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000086.8 Reference GRCm39 C57BL/6J

    Range
    102475123..102528563
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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