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Aliases for GSDMB Gene

Aliases for GSDMB Gene

  • Gasdermin B 2 3 5
  • Gasdermin-Like Protein 3 4
  • GSDML 3 4
  • Gasdermin-Like 2
  • PRO2521 3
  • PP4052 3

External Ids for GSDMB Gene

Previous HGNC Symbols for GSDMB Gene

  • GSDML

Previous GeneCards Identifiers for GSDMB Gene

  • GC17M035315
  • GC17M038060
  • GC17M033854

Summaries for GSDMB Gene

Entrez Gene Summary for GSDMB Gene

  • This gene encodes a member of the gasdermin-domain containing protein family. Other gasdermin-family genes are implicated in the regulation of apoptosis in epithelial cells, and are linked to cancer. Multiple transcript variants encoding different isoforms have been found for this gene. Additional variants have been described, but they are candidates for nonsense-mediated mRNA decay (NMD) and are unlikely to be protein-coding. [provided by RefSeq, Sep 2009]

GeneCards Summary for GSDMB Gene

GSDMB (Gasdermin B) is a Protein Coding gene.

UniProtKB/Swiss-Prot for GSDMB Gene

  • Upon activation, mediates pyroptosis.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for GSDMB Gene

Genomics for GSDMB Gene

Regulatory Elements for GSDMB Gene

Enhancers for GSDMB Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around GSDMB on UCSC Golden Path with GeneCards custom track

Genomic Location for GSDMB Gene

Chromosome:
17
Start:
39,904,595 bp from pter
End:
39,919,854 bp from pter
Size:
15,260 bases
Orientation:
Minus strand

Genomic View for GSDMB Gene

Genes around GSDMB on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
GSDMB Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for GSDMB Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for GSDMB Gene

Proteins for GSDMB Gene

  • Protein details for GSDMB Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8TAX9-GSDMB_HUMAN
    Recommended name:
    Gasdermin-B
    Protein Accession:
    Q8TAX9
    Secondary Accessions:
    • B4DKK7
    • Q7Z377
    • Q8WY76
    • Q9NX71
    • Q9P163

    Protein attributes for GSDMB Gene

    Size:
    411 amino acids
    Molecular mass:
    46786 Da
    Quaternary structure:
    No Data Available
    Miscellaneous:
    • GSDML may be used as predictive markers of cervical lymph node metastasis and may help, with a panel of other genes, to discriminate between primary tumors of oral squamous cell carcinoma that metastasize to cervical lymph node and those that do not metastasize.
    • Long terminal repeat (LTR) of endogenous retroviruse HERV-H with reverse orientation may serve as alternative promoters of GSDML gene.
    • The GSDML gene is predicted to be generated due to a duplication of GSDM gene; the rodent GSDML ortholog failed to be yet identified. The evolutionary recombination hotspot around GSDML-GSDM locus is closely related to the oncogenomic recombination hotspot or fragile sites within the human genome.

    Alternative splice isoforms for GSDMB Gene

neXtProt entry for GSDMB Gene

Proteomics data for GSDMB Gene at MOPED

Post-translational modifications for GSDMB Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Antibody Products

No data available for DME Specific Peptides for GSDMB Gene

Domains & Families for GSDMB Gene

Protein Domains for GSDMB Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for GSDMB Gene

Graphical View of Domain Structure for InterPro Entry

Q8TAX9

UniProtKB/Swiss-Prot:

GSDMB_HUMAN :
  • Intramolecular interactions between N- and C-terminal domains may be important for autoinhibition in the absence of activation signal. The intrinsic pyroptosis-inducing activity is carried by the N-terminal domain.
  • Belongs to the gasdermin family.
Domain:
  • Intramolecular interactions between N- and C-terminal domains may be important for autoinhibition in the absence of activation signal. The intrinsic pyroptosis-inducing activity is carried by the N-terminal domain.
Family:
  • Belongs to the gasdermin family.
genes like me logo Genes that share domains with GSDMB: view

No data available for Gene Families for GSDMB Gene

Function for GSDMB Gene

Molecular function for GSDMB Gene

UniProtKB/Swiss-Prot Function:
Upon activation, mediates pyroptosis.
genes like me logo Genes that share phenotypes with GSDMB: view

Animal Model Products

CRISPR Products

miRNA for GSDMB Gene

miRTarBase miRNAs that target GSDMB

Inhibitory RNA Products

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for GSDMB Gene

Localization for GSDMB Gene

Subcellular locations from UniProtKB/Swiss-Prot for GSDMB Gene

Cytoplasm. Note=Vesicular localization in the apical region of gastric chief cells and colonic surface mucous cells, and the basal region of neuroendocrine cells.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for GSDMB Gene COMPARTMENTS Subcellular localization image for GSDMB gene
Compartment Confidence
cytosol 1
nucleus 1

No data available for Gene Ontology (GO) - Cellular Components for GSDMB Gene

Pathways & Interactions for GSDMB Gene

SuperPathways for GSDMB Gene

No Data Available

Interacting Proteins for GSDMB Gene

Gene Ontology (GO) - Biological Process for GSDMB Gene

None

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

Drugs & Compounds for GSDMB Gene

No Compound Related Data Available

Transcripts for GSDMB Gene

Unigene Clusters for GSDMB Gene

Gasdermin B:
Representative Sequences:

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

ExUns: 1a · 1b ^ 2a · 2b · 2c · 2d · 2e · 2f ^ 3a · 3b ^ 4a · 4b ^ 5a · 5b ^ 6a · 6b ^ 7 ^ 8a · 8b ^ 9 ^ 10 ^ 11
SP1: - - - - -
SP2: - -
SP3: - -
SP4: - - - -
SP5: - - - - -
SP6:
SP7: - - -
SP8: - - - -
SP9: - - - - - -

Relevant External Links for GSDMB Gene

GeneLoc Exon Structure for
GSDMB
ECgene alternative splicing isoforms for
GSDMB

Expression for GSDMB Gene

mRNA expression in normal human tissues for GSDMB Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

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

This gene is overexpressed in Liver (x4.8), Colon - Transverse (x4.2), and Small Intestine - Terminal Ileum (x4.1).

Protein differential expression in normal tissues from HIPED for GSDMB Gene

This gene is overexpressed in Stomach (26.8), Islet of Langerhans (15.1), and Rectum (15.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for GSDMB Gene



SOURCE GeneReport for Unigene cluster for GSDMB Gene Hs.306777

mRNA Expression by UniProt/SwissProt for GSDMB Gene

Q8TAX9-GSDMB_HUMAN
Tissue specificity: In the gastrointestinal tract, expressed in proliferating cells, including in the basal cell layer of esophagus and in isthmus/neck of stomach.
genes like me logo Genes that share expression patterns with GSDMB: view

Protein tissue co-expression partners for GSDMB Gene

Primer Products

In Situ Assay Products

Orthologs for GSDMB Gene

This gene was present in the common ancestor of mammals.

Orthologs for GSDMB Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia GSDMB 35
  • 73.12 (n)
  • 56.66 (a)
GSDMB 36
  • 55 (a)
OneToOne
dog
(Canis familiaris)
Mammalia GSDMB 35
  • 74.88 (n)
  • 53.62 (a)
GSDMB 36
  • 51 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia GSDMB 35
  • 99.44 (n)
  • 98.8 (a)
GSDMB 36
  • 99 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia GSDMB 36
  • 30 (a)
OneToOne
Species with no ortholog for GSDMB:
  • 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)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • 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)
  • mouse (Mus musculus)
  • 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 GSDMB Gene

ENSEMBL:
Gene Tree for GSDMB (if available)
TreeFam:
Gene Tree for GSDMB (if available)

Paralogs for GSDMB Gene

(1) SIMAP similar genes for GSDMB Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with GSDMB: view

No data available for Paralogs for GSDMB Gene

Variants for GSDMB Gene

Sequence variations from dbSNP and Humsavar for GSDMB Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type
rs12450091 - 39,912,368(+) GGTTC(C/T)CCGAT nc-transcript-variant, reference, missense
VAR_042633 -
VAR_042634 A breast cancer sample
rs2305479 - 39,905,964(-) TTTCC(A/G)GGGAG nc-transcript-variant, downstream-variant-500B, reference, missense
rs2305480 - 39,905,943(-) AGGAC(C/T)CAGAC nc-transcript-variant, downstream-variant-500B, reference, missense

Variation tolerance for GSDMB Gene

Residual Variation Intolerance Score: 75.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 11.87; 93.50% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for GSDMB Gene

HapMap Linkage Disequilibrium report
GSDMB
Human Gene Mutation Database (HGMD)
GSDMB

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

Disorders for GSDMB Gene

Relevant External Links for GSDMB

Genetic Association Database (GAD)
GSDMB
Human Genome Epidemiology (HuGE) Navigator
GSDMB
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
GSDMB

No disorders were found for GSDMB Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for GSDMB Gene

Publications for GSDMB Gene

  1. Members of a novel gene family, Gsdm, are expressed exclusively in the epithelium of the skin and gastrointestinal tract in a highly tissue-specific manner. (PMID: 17350798) Tamura M. … Shiroishi T. (Genomics 2007) 2 3 4 67
  2. Evolutionary recombination hotspot around GSDML-GSDM locus is closely linked to the oncogenomic recombination hotspot around the PPP1R1B- ERBB2-GRB7 amplicon. (PMID: 15010812) Katoh M. … Katoh M. (Int. J. Oncol. 2004) 2 3 23
  3. Genetic variation in ORM1-like 3 (ORMDL3) and gasdermin-like (GSDML) and childhood asthma. (PMID: 19133921) Wu H. … London S.J. (Allergy 2009) 3 23
  4. Differential expression and localisation of gasdermin-like (GSDML), a novel member of the cancer-associated GSDMDC protein family, in neoplastic and non-neoplastic gastric, hepatic, and colon tissues. (PMID: 18038310) Carl-McGrath S. … Roecken C. (Pathology 2008) 3 23
  5. Identification and characterization of human ZPBP-like gene in silico. (PMID: 12883658) Katoh M. … Katoh M. (Int. J. Mol. Med. 2003) 2 3

Products for GSDMB Gene

Sources for GSDMB Gene

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