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Aliases for XIST Gene

Subcategory (RNA class) for XIST Gene

non-coding RNA

Quality Score for this RNA gene is


Aliases for XIST Gene

  • X Inactive Specific Transcript (Non-Protein Coding) 2 3
  • X (Inactive)-Specific Transcript (Non-Protein Coding) 2 3
  • Long Intergenic Non-Protein Coding RNA 1 2 3
  • X (Inactive)-Specific Transcript 2
  • NCRNA00001 3
  • LINC00001 3
  • DXS1089 3
  • DXS399E 3
  • Swd66 3
  • SXI1 3

External Ids for XIST Gene

Previous HGNC Symbols for XIST Gene

  • DXS399E

Previous GeneCards Identifiers for XIST Gene

  • GC0XU990236
  • GC0XM071907
  • GC0XM072823
  • GC0XM072957
  • GC0XM066674
  • GC0XM073040

Summaries for XIST Gene

Entrez Gene Summary for XIST Gene

  • X inactivation is an early developmental process in mammalian females that transcriptionally silences one of the pair of X chromosomes, thus providing dosage equivalence between males and females. The process is regulated by several factors, including a region of chromosome X called the X inactivation center (XIC). The XIC comprises several non-coding and protein-coding genes, and this gene was the first non-coding gene identified within the XIC. This gene is expressed exclusively from the XIC of the inactive X chromosome, and is essential for the initiation and spread of X-inactivation. The transcript is a spliced RNA. Alternatively spliced transcript variants have been identified, but their full length sequences have not been determined. Mutations in the XIST promoter cause familial skewed X inactivation. [provided by RefSeq, Apr 2012]

GeneCards Summary for XIST Gene

XIST (X Inactive Specific Transcript (Non-Protein Coding)) is an RNA Gene, and is affiliated with the non-coding RNA class. Diseases associated with XIST include x-inactivation, familial skewed and craniofrontonasal dysplasia.

Gene Wiki entry for XIST Gene

No data available for UniProtKB/Swiss-Prot , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for XIST Gene

Genomics for XIST Gene

Regulatory Elements for XIST Gene

Genomic Location for XIST Gene

73,820,651 bp from pter
73,852,753 bp from pter
32,103 bases
Minus strand

Genomic View for XIST Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for XIST Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for XIST Gene

Proteins for XIST Gene

Post-translational modifications for XIST Gene

No Post-translational modifications

No data available for DME Specific Peptides for XIST Gene

Domains & Families for XIST Gene

Gene Families for XIST Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with XIST: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for XIST Gene

Function for XIST Gene

Molecular function for XIST Gene

GENATLAS Biochemistry:
X inactive,specific transcript,implicated in recognizing the number of X chromosomes and initiating a silencing signal on cis,with promoter mutation in extreme skewed X inactivation pattern,replicated before its expressed allele,involved in the overexpression of H2A1M in inactivated X
genes like me logo Genes that share phenotypes with XIST: view

Animal Models for XIST Gene

MGI Knock Outs for XIST:

miRNA for XIST Gene

miRTarBase miRNAs that target XIST

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for XIST

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Transcription Factor Targets and HOMER Transcription for XIST Gene

Localization for XIST Gene

Subcellular locations from

Jensen Localization Image for XIST Gene COMPARTMENTS Subcellular localization image for XIST gene
Compartment Confidence
nucleus 2

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for XIST Gene

Pathways & Interactions for XIST Gene

SuperPathways for XIST Gene

No Data Available

Interacting Proteins for XIST Gene

Gene Ontology (GO) - Biological Process for XIST Gene


No data available for Pathways by source and SIGNOR curated interactions for XIST Gene

Drugs & Compounds for XIST Gene

No Compound Related Data Available

Transcripts for XIST Gene

Unigene Clusters for XIST Gene

X inactive specific transcript (non-protein coding):
Representative Sequences:

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for XIST

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for XIST Gene

No ASD Table

Relevant External Links for XIST Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for XIST Gene

mRNA expression in normal human tissues for XIST Gene

mRNA differential expression in normal tissues according to GTEx for XIST Gene

This gene is overexpressed in Ovary (x4.8).

SOURCE GeneReport for Unigene cluster for XIST Gene Hs.529901

genes like me logo Genes that share expression patterns with XIST: view

Primer Products

  • QuantiTect SYBR Green Assays in human,mouse,rat
  • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
  • QuantiFast Probe-based Assays in human,mouse,rat

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein differential expression in normal tissues , Protein expression , mRNA Expression by UniProt/SwissProt and Protein tissue co-expression partners for XIST Gene

Orthologs for XIST Gene

This gene was present in the common ancestor of human and mouse.

Orthologs for XIST Gene

Organism Taxonomy Gene Similarity Type Details
(Mus musculus)
Mammalia Xist 16
Species with no ortholog for XIST:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • chimpanzee (Pan troglodytes)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • cow (Bos Taurus)
  • dog (Canis familiaris)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for XIST Gene

Gene Tree for XIST (if available)
Gene Tree for XIST (if available)

Paralogs for XIST Gene

No data available for Paralogs for XIST Gene

Variants for XIST Gene

Sequence variations from dbSNP and Humsavar for XIST Gene

SNP ID Clin Chr 0X pos Sequence Context AA Info Type MAF
rs6527 -- 73,847,056(-) CTTAG(G/T)TGTTA nc-transcript-variant
rs6528 -- 73,848,738(-) TGCAT(A/G)ATTGC nc-transcript-variant
rs1009948 -- 73,833,838(-) ATACA(A/G)TACCA intron-variant
rs1894271 -- 73,846,604(-) GCACA(A/G/T)TTGTA nc-transcript-variant
rs2151129 -- 73,838,037(+) AAGAC(C/T)TAGTC intron-variant

Relevant External Links for XIST Gene

HapMap Linkage Disequilibrium report
Human Gene Mutation Database (HGMD)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Structural Variations from Database of Genomic Variants (DGV) and Variation tolerance for XIST Gene

Disorders for XIST Gene

MalaCards: The human disease database

(5) MalaCards diseases for XIST Gene - From: OMIM, ClinVar, DISEASES, NovoSeek, and GeneCards

Disorder Aliases PubMed IDs
x-inactivation, familial skewed
  • x inactivation, familial skewed, 1
craniofrontonasal dysplasia
  • craniofrontonasal syndrome
testicular cancer
  • testicular tumor
uterine corpus serous adenocarcinoma
  • uterine serous carcinoma
klinefelter's syndrome
  • klinefelter syndrome
- elite association
Search XIST in MalaCards View complete list of genes associated with diseases

Relevant External Links for XIST

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

No data available for UniProtKB/Swiss-Prot and Genatlas for XIST Gene

Publications for XIST Gene

  1. Getting to the center of X-chromosome inactivation: the role of transgenes. (PMID: 19898525) Minks J. … Brown C.J. (Biochem. Cell Biol. 2009) 23 67
  2. [Molecular genetic characterization of the regulatory region of the Xist gene in the common vole Microtus rossiaemeridionalis]. (PMID: 19947545) Orishchenko K.E. … Zakian S.M. (Genetika 2009) 23 67
  3. Transcript versus transcription? (PMID: 19013827) Shibata S. … Wutz A. (Epigenetics 2008) 23 67
  4. X-inactivation in female human embryonic stem cells is in a nonrandom pattern and prone to epigenetic alterations. (PMID: 18339804) Shen Y. … Fan G. (Proc. Natl. Acad. Sci. U.S.A. 2008) 23 67
  5. A dual origin of the Xist gene from a protein-coding gene and a set of transposable elements. (PMID: 18575625) Elisaphenko E.A. … Zakian S.M. (PLoS ONE 2008) 23 67

Products for XIST Gene

Sources for XIST Gene

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