U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

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

    Gene ID: 22097, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    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 inactivation of paternal X chromosome by genomic imprinting; negative regulation of transcription by RNA polymerase II; and transcription initiation-coupled chromatin remodeling. 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, Dec 2024]
    Expression
    Broad expression in limb E14.5 (RPKM 6.6), thymus adult (RPKM 5.0) and 20 other tissues See more
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Tsix in Genome Data Viewer
    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

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. 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
    2. Targeted mutagenesis of Tsix leads to nonrandom X inactivation. Lee JT, et al. Cell, 1999 Oct 1. PMID 10520993
    3. Disruption of imprinted X inactivation by parent-of-origin effects at Tsix. Lee JT. Cell, 2000 Sep 29. PMID 11051544
    4. Effect of TSIX disruption on XIST expression in male ES cells. Sado T, et al. Cytogenet Genome Res, 2002. PMID 12900553
    5. The DXPas34 repeat regulates random and imprinted X inactivation. Cohen DE, et al. Dev Cell, 2007 Jan. PMID 17199041

    See all (80) 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

    Go to the top of the page Help

    Alleles

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

    Pathways from PubChem

    Go to the top of the page

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    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)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.