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Aliases for XIST Gene

Subcategory (RNA class) for XIST Gene


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
  • SXI1 3 6
  • X (Inactive)-Specific Transcript 2
  • NCRNA00001 3
  • LINC00001 3
  • DXS1089 3
  • DXS399E 3
  • Swd66 3
  • XIC 6
  • XCE 6

External Ids for XIST Gene

ORGUL Members 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 lncRNA class. Diseases associated with XIST include x-inactivation, familial skewed.

Gene Wiki entry for XIST Gene

fRNAdb sequence ontologies for XIST Gene

  • ncRNA: An RNA transcript that does not encode for a protein rather the RNA molecule is the gene product.

No data available for UniProtKB/Swiss-Prot , Tocris Summary , PharmGKB "VIP" Summary 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 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

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

Pathways 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 for XIST Gene

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 expression in embryonic tissues and stem cells from LifeMap Discovery

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

This gene is overexpressed in Ovary (4.8).

SOURCE GeneReport for Unigene cluster for XIST Gene Hs.529901

genes like me logo Genes that share expressions 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 Protein differential expression in normal tissues , Protein expression , mRNA Expression by UniProt/SwissProt and 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 and Structural Variations from Database of Genomic Variants (DGV) for XIST Gene

Disorders for XIST Gene

MalaCards: The human disease database

MalaCards: The human disease database.

Search for XIST Gene in MalaCards »

(1) Disease for XIST Gene

(1) OMIM Diseases for XIST Gene (314670)

(1) Novoseek inferred disease relationships for XIST Gene

Disease -log(P) Hits PubMed IDs
testicular cancer 34.3 1
genes like me logo Genes that share disorders with XIST: view

No data available for UniProtKB/Swiss-Prot , University of Copenhagen DISEASES , Genatlas and External Links for XIST Gene

Publications for XIST Gene

  1. A gene from the region of the human X inactivation centre is expressed exclusively from the inactive X chromosome. (PMID: 1985261) Brown C.J. … Willard H.F. (Nature 1991) 2 3
  2. Conservation of position and exclusive expression of mouse Xist from the inactive X chromosome. (PMID: 2034279) Brockdorff N. … Rastan S. (Nature 1991) 2 3
  3. Localization of the X inactivation centre on the human X chromosome in Xq13. (PMID: 1985270) Brown C.J. … Willard H.F. (Nature 1991) 3 23
  4. A revision of the human XIST gene organization and structural comparison with mouse Xist. (PMID: 10723727) Hong Y.K. … Strauss W.M. (Mamm. Genome 2000) 3 23
  5. Familial cases of point mutations in the XIST promoter reveal a correlation between CTCF binding and pre-emptive choices of X chromosome inactivation. (PMID: 15731119) Pugacheva E.M. … Lobanenkov V.V. (Hum. Mol. Genet. 2005) 3 23

Products for XIST Gene

Sources for XIST Gene

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