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Aliases for OSTM1 Gene

Aliases for OSTM1 Gene

  • Osteopetrosis Associated Transmembrane Protein 1 2 3 5
  • Chloride Channel 7 Beta Subunit 3 4
  • CLCN7 Accessory Beta Subunit 2 3
  • GL 3 4
  • Osteopetrosis-Associated Transmembrane Protein 1 3
  • GAIP-Interacting Protein N Terminus 3
  • Grey-Lethal Osteopetrosis 3
  • HSPC019 3
  • OPTB5 3
  • GIPN 3

External Ids for OSTM1 Gene

Previous GeneCards Identifiers for OSTM1 Gene

  • GC06M108364
  • GC06M108409
  • GC06M108470
  • GC06M105930
  • GC06M108363

Summaries for OSTM1 Gene

Entrez Gene Summary for OSTM1 Gene

  • This gene encodes a protein that may be involved in the degradation of G proteins via the ubiquitin-dependent proteasome pathway. The encoded protein binds to members of subfamily A of the regulator of the G-protein signaling (RGS) family through an N-terminal leucine-rich region. This protein also has a central RING finger-like domain and E3 ubiquitin ligase activity. This protein is highly conserved from flies to humans. Defects in this gene may cause the autosomal recessive, infantile malignant form of osteopetrosis. [provided by RefSeq, Jul 2008]

GeneCards Summary for OSTM1 Gene

OSTM1 (Osteopetrosis Associated Transmembrane Protein 1) is a Protein Coding gene. Diseases associated with OSTM1 include Osteopetrosis, Autosomal Recessive 5 and Infantile Osteopetrosis With Neuroaxonal Dysplasia. Among its related pathways are Ion channel transport and Transport of glucose and other sugars, bile salts and organic acids, metal ions and amine compounds.

UniProtKB/Swiss-Prot for OSTM1 Gene

  • Required for osteoclast and melanocyte maturation and function.

Gene Wiki entry for OSTM1 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for OSTM1 Gene

Genomics for OSTM1 Gene

Regulatory Elements for OSTM1 Gene

Enhancers for OSTM1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH06G108113 2.1 VISTA Ensembl 11.6 +50.5 50480 3.7 CREB3L1 ZSCAN4 YBX1 ZNF2 ZNF48 RAD21 ZNF366 ZNF143 ZNF263 ZNF654 NR2E1 OSTM1 OSTM1-AS1 ENSG00000238490
GH06G108117 1.7 Ensembl 12.5 +47.7 47688 1.4 SUZ12 CEBPG RBBP5 ZBTB48 EZH2 RNF2 L3MBTL2 HLF CBX2 CHD1 NR2E1 OSTM1 SEC63 OSTM1-AS1 ENSG00000238490
GH06G108133 1.2 Ensembl ENCODE 12.6 +31.7 31720 1.5 PKNOX1 SIN3A ZNF2 ZNF48 GLIS2 KLF7 ZNF263 TSHZ1 KAT8 CBX8 NR2E1 OSTM1 SEC63 GC06M108139 OSTM1-AS1
GH06G108073 1.1 ENCODE 12.8 +91.3 91263 2.7 CREB3L1 ARID4B SIN3A DMAP1 YY1 SLC30A9 ZNF143 ZNF207 SP3 SP5 OSTM1 ENSG00000238490 OSTM1-AS1
GH06G108541 1.4 Ensembl ENCODE dbSUPER 9.4 -376.3 -376282 0.7 ELF3 HDGF ARNT WRNIP1 YBX1 ZNF2 RAD21 ZNF366 SCRT2 ZNF391 ARMC2 RNU6-653P ARMC2-AS1 SEC63 OSTM1 NR2E1 ENSG00000271608 GC06P108423 GC06P108424
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around OSTM1 on UCSC Golden Path with GeneCards custom track

Genomic Location for OSTM1 Gene

Chromosome:
6
Start:
108,041,409 bp from pter
End:
108,165,854 bp from pter
Size:
124,446 bases
Orientation:
Minus strand

Genomic View for OSTM1 Gene

Genes around OSTM1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
OSTM1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for OSTM1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for OSTM1 Gene

Proteins for OSTM1 Gene

  • Protein details for OSTM1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q86WC4-OSTM1_HUMAN
    Recommended name:
    Osteopetrosis-associated transmembrane protein 1
    Protein Accession:
    Q86WC4
    Secondary Accessions:
    • E1P5E3
    • Q5R391
    • Q6PCA7
    • Q7RTW6
    • Q8NC29
    • Q8TC82
    • Q9Y2S9

    Protein attributes for OSTM1 Gene

    Size:
    334 amino acids
    Molecular mass:
    37257 Da
    Quaternary structure:
    • Chloride channel 7 are heteromers of alpha (CLCN7) and beta (OSTM1) subunits.
    SequenceCaution:
    • Sequence=AAD27000.1; Type=Frameshift; Positions=221; Evidence={ECO:0000305};

neXtProt entry for OSTM1 Gene

Post-translational modifications for OSTM1 Gene

  • Highly N-glycosylated.
  • Undergoes proteolytic cleavage in the luminal domain, the cleaved fragments might be linked by disulfide bonds with the remnant of the protein.
  • Glycosylation at posLast=9393, posLast=128128, Asn135, Asn163, posLast=177177, Asn184, posLast=194194, Asn216, posLast=263263, and Asn274
  • Modification sites at PhosphoSitePlus

Other Protein References for OSTM1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for OSTM1 Gene

Domains & Families for OSTM1 Gene

Protein Domains for OSTM1 Gene

Suggested Antigen Peptide Sequences for OSTM1 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with OSTM1: view

No data available for Gene Families and UniProtKB/Swiss-Prot for OSTM1 Gene

Function for OSTM1 Gene

Molecular function for OSTM1 Gene

UniProtKB/Swiss-Prot Function:
Required for osteoclast and melanocyte maturation and function.
genes like me logo Genes that share phenotypes with OSTM1: view

Human Phenotype Ontology for OSTM1 Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Model Products

  • Taconic Biosciences Mouse Models for OSTM1

CRISPR Products

miRNA for OSTM1 Gene

miRTarBase miRNAs that target OSTM1

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Animal Models , Transcription Factor Targets and HOMER Transcription for OSTM1 Gene

Localization for OSTM1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for OSTM1 Gene

Lysosome membrane; Single-pass type I membrane protein. Note=Requires CLCN7 to travel to lysosomes.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for OSTM1 gene
Compartment Confidence
lysosome 5
cytosol 4
plasma membrane 3
extracellular 2
endosome 2
peroxisome 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for OSTM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005765 lysosomal membrane TAS --
GO:0005829 cytosol IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with OSTM1: view

Pathways & Interactions for OSTM1 Gene

genes like me logo Genes that share pathways with OSTM1: view

Pathways by source for OSTM1 Gene

Gene Ontology (GO) - Biological Process for OSTM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0030316 osteoclast differentiation IEA --
GO:0034220 ion transmembrane transport TAS --
genes like me logo Genes that share ontologies with OSTM1: view

No data available for SIGNOR curated interactions for OSTM1 Gene

Drugs & Compounds for OSTM1 Gene

No Compound Related Data Available

Transcripts for OSTM1 Gene

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for OSTM1 Gene

No ASD Table

Relevant External Links for OSTM1 Gene

GeneLoc Exon Structure for
OSTM1
ECgene alternative splicing isoforms for
OSTM1

Expression for OSTM1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for OSTM1 Gene

Protein differential expression in normal tissues from HIPED for OSTM1 Gene

This gene is overexpressed in Monocytes (19.3), Peripheral blood mononuclear cells (11.7), Retina (11.0), Placenta (9.6), and Testis (9.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for OSTM1 Gene



Protein tissue co-expression partners for OSTM1 Gene

NURSA nuclear receptor signaling pathways regulating expression of OSTM1 Gene:

OSTM1

SOURCE GeneReport for Unigene cluster for OSTM1 Gene:

Hs.226780

Evidence on tissue expression from TISSUES for OSTM1 Gene

  • Blood(4.2)
  • Liver(4.2)
  • Nervous system(3.5)

Phenotype-based relationships between genes and organs from Gene ORGANizer for OSTM1 Gene

Germ Layers:
  • ectoderm
  • mesoderm
Systems:
  • nervous
  • skeleton
Organs:
Head and neck:
  • brain
  • cerebellum
  • cerebrospinal fluid
  • head
  • jaw
  • mandible
  • maxilla
  • meninges
  • mouth
  • neck
  • skull
Thorax:
  • chest wall
  • clavicle
  • rib
  • rib cage
  • scapula
  • sternum
Pelvis:
  • pelvis
Limb:
  • ankle
  • arm
  • digit
  • elbow
  • femur
  • fibula
  • finger
  • foot
  • forearm
  • hand
  • hip
  • humerus
  • knee
  • lower limb
  • radius
  • shin
  • shoulder
  • thigh
  • tibia
  • toe
  • ulna
  • upper limb
  • wrist
General:
  • spinal column
  • vertebrae
genes like me logo Genes that share expression patterns with OSTM1: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for OSTM1 Gene

Orthologs for OSTM1 Gene

This gene was present in the common ancestor of animals.

Orthologs for OSTM1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia OSTM1 34 35
  • 99.5 (n)
dog
(Canis familiaris)
Mammalia OSTM1 34 35
  • 91.36 (n)
cow
(Bos Taurus)
Mammalia OSTM1 34 35
  • 89.43 (n)
mouse
(Mus musculus)
Mammalia Ostm1 34 16 35
  • 79.58 (n)
rat
(Rattus norvegicus)
Mammalia Ostm1 34
  • 79.14 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia OSTM1 35
  • 79 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia OSTM1 35
  • 78 (a)
OneToOne
chicken
(Gallus gallus)
Aves OSTM1 34 35
  • 70.16 (n)
lizard
(Anolis carolinensis)
Reptilia OSTM1 35
  • 63 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia ostm1 34
  • 61.74 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.3285 34
zebrafish
(Danio rerio)
Actinopterygii ostm1 34 35
  • 55.31 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG14969 35
  • 21 (a)
OneToOne
Species where no ortholog for OSTM1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • 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)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for OSTM1 Gene

ENSEMBL:
Gene Tree for OSTM1 (if available)
TreeFam:
Gene Tree for OSTM1 (if available)

Paralogs for OSTM1 Gene

No data available for Paralogs for OSTM1 Gene

Variants for OSTM1 Gene

Sequence variations from dbSNP and Humsavar for OSTM1 Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs119460973 Pathogenic 108,074,616(-) AGGTG(A/T)TCGTT nc-transcript-variant, reference, stop-gained
rs794727287 Pathogenic 108,064,286(-) CAGAG(-/AG)TCAGA nc-transcript-variant, reference, frameshift-variant
rs111332944 Likely benign 108,042,238(+) ACCAG(C/T)TTGGG upstream-variant-2KB, utr-variant-3-prime
rs112424495 Likely benign 108,041,456(+) AGTTA(C/T)TTGTC upstream-variant-2KB, utr-variant-3-prime
rs112919802 Likely benign 108,041,466(+) CATTA(A/C)ACATG upstream-variant-2KB, utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for OSTM1 Gene

Variant ID Type Subtype PubMed ID
esv3610308 CNV loss 21293372
nsv1031826 CNV loss 25217958
nsv472800 CNV novel sequence insertion 20440878
nsv604456 CNV loss 21841781
nsv820169 CNV loss 19587683

Variation tolerance for OSTM1 Gene

Residual Variation Intolerance Score: 37.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.71; 57.41% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for OSTM1 Gene

Human Gene Mutation Database (HGMD)
OSTM1
SNPedia medical, phenotypic, and genealogical associations of SNPs for
OSTM1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for OSTM1 Gene

Disorders for OSTM1 Gene

MalaCards: The human disease database

(6) MalaCards diseases for OSTM1 Gene - From: OMIM, ClinVar, GeneTests, Orphanet, DISEASES, Novoseek, and GeneCards

- elite association - COSMIC cancer census association via MalaCards
Search OSTM1 in MalaCards View complete list of genes associated with diseases

UniProtKB/Swiss-Prot

OSTM1_HUMAN
  • Osteopetrosis, autosomal recessive 5 (OPTB5) [MIM:259720]: A rare genetic disease characterized by abnormally dense bone, due to defective resorption of immature bone. Osteopetrosis occurs in two forms: a severe autosomal recessive form occurring in utero, infancy, or childhood, and a benign autosomal dominant form occurring in adolescence or adulthood. Recessive osteopetrosis commonly manifests in early infancy with macrocephaly, feeding difficulties, evolving blindness and deafness, bone marrow failure, severe anemia, and hepatosplenomegaly. Deafness and blindness are generally thought to represent effects of pressure on nerves. OPTB5 patients manifest primary central nervous system involvement in addition to the classical stigmata of severe bone sclerosis, growth failure, anemia, thrombocytopenia and visual impairment with optic atrophy. {ECO:0000269 PubMed:12627228, ECO:0000269 PubMed:16813530}. Note=The disease is caused by mutations affecting the gene represented in this entry.

Relevant External Links for OSTM1

Genetic Association Database (GAD)
OSTM1
Human Genome Epidemiology (HuGE) Navigator
OSTM1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
OSTM1
genes like me logo Genes that share disorders with OSTM1: view

No data available for Genatlas for OSTM1 Gene

Publications for OSTM1 Gene

  1. Grey-lethal mutation induces severe malignant autosomal recessive osteopetrosis in mouse and human. (PMID: 12627228) Chalhoub N. … Vacher J. (Nat. Med. 2003) 2 3 4 22 64
  2. ClC-7 is a slowly voltage-gated 2Cl(-)/1H(+)-exchanger and requires Ostm1 for transport activity. (PMID: 21527911) Leisle L. … Stauber T. (EMBO J. 2011) 2 3 4 64
  3. High-density association study of 383 candidate genes for volumetric BMD at the femoral neck and lumbar spine among older men. (PMID: 19453261) Yerges L.M. … Zmuda J.M. (J. Bone Miner. Res. 2009) 3 46 64
  4. Candidate gene/loci studies in cleft lip/palate and dental anomalies finds novel susceptibility genes for clefts. (PMID: 18978678) Vieira A.R. … Marazita M.L. (Genet. Med. 2008) 3 46 64
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64

Products for OSTM1 Gene

Sources for OSTM1 Gene

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