Atlas of Genetics and Cytogenetics in Oncology and Haematology


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OMD (osteomodulin)

Identity

Alias (NCBI)OSAD
SLRR2C
HGNC (Hugo) OMD
HGNC Alias symbosteoadherin
SLRR2C
HGNC Alias nameosteoadherin proteoglycan
LocusID (NCBI) 4958
Atlas_Id 42962
Location 9q22.31  [Link to chromosome band 9q22]
Location_base_pair Starts at 92414245 and ends at 92424554 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
OMD (9q22.31) / USP6 (17p13.2)USP6 (17p13.2) / OMD (9q22.31)OMD USP6

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 



Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 2 ]
  Bone: Aneurysmal bone cysts
Bone: Aneurysmal bone cyst with t(9;17)(q22;p13) OMD/USP6


External links

Nomenclature
HGNC (Hugo)OMD   8134
Cards
Entrez_Gene (NCBI)OMD  4958  osteomodulin
AliasesOSAD; SLRR2C
GeneCards (Weizmann)OMD
Ensembl hg19 (Hinxton)ENSG00000127083 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000127083 [Gene_View]  ENSG00000127083 [Sequence]  chr9:92414245-92424554 [Contig_View]  OMD [Vega]
ICGC DataPortalENSG00000127083
TCGA cBioPortalOMD
AceView (NCBI)OMD
Genatlas (Paris)OMD
WikiGenes4958
SOURCE (Princeton)OMD
Genetics Home Reference (NIH)OMD
Genomic and cartography
GoldenPath hg38 (UCSC)OMD  -     chr9:92414245-92424554 -  9q22.31   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)OMD  -     9q22.31   [Description]    (hg19-Feb_2009)
GoldenPathOMD - 9q22.31 [CytoView hg19]  OMD - 9q22.31 [CytoView hg38]
ImmunoBaseENSG00000127083
genome Data Viewer NCBIOMD [Mapview hg19]  
OMIM618926   
Gene and transcription
Genbank (Entrez)AB000114 AK225922 AK313055 AY358872 BC046356
RefSeq transcript (Entrez)NM_005014
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)OMD
Alternative Splicing GalleryENSG00000127083
Gene ExpressionOMD [ NCBI-GEO ]   OMD [ EBI - ARRAY_EXPRESS ]   OMD [ SEEK ]   OMD [ MEM ]
Gene Expression Viewer (FireBrowse)OMD [ Firebrowse - Broad ]
GenevisibleExpression of OMD in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)4958
GTEX Portal (Tissue expression)OMD
Human Protein AtlasENSG00000127083-OMD [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ99983   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ99983  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ99983
Splice isoforms : SwissVarQ99983
PhosPhoSitePlusQ99983
Domaine pattern : Prosite (Expaxy)LRR (PS51450)   
Domains : Interpro (EBI)Leu-rich_rpt    Leu-rich_rpt_typical-subtyp    LRR_dom_sf    LRRNT    Osteomodulin   
Domain families : Pfam (Sanger)LRR_8 (PF13855)   
Domain families : Pfam (NCBI)pfam13855   
Domain families : Smart (EMBL)LRR_TYP (SM00369)  LRRNT (SM00013)  
Conserved Domain (NCBI)OMD
DMDM Disease mutations4958
Blocks (Seattle)OMD
PDB (RSDB)5YQ5   
PDB Europe5YQ5   
PDB (PDBSum)5YQ5   
PDB (IMB)5YQ5   
Structural Biology KnowledgeBase5YQ5   
SCOP (Structural Classification of Proteins)5YQ5   
CATH (Classification of proteins structures)5YQ5   
SuperfamilyQ99983
Human Protein Atlas [tissue]ENSG00000127083-OMD [tissue]
Peptide AtlasQ99983
HPRD10128
IPIIPI00020990   
Protein Interaction databases
DIP (DOE-UCLA)Q99983
IntAct (EBI)Q99983
FunCoupENSG00000127083
BioGRIDOMD
STRING (EMBL)OMD
ZODIACOMD
Ontologies - Pathways
QuickGOQ99983
Ontology : AmiGOextracellular region  extracellular space  Golgi lumen  cell adhesion  keratan sulfate biosynthetic process  regulation of bone mineralization  keratan sulfate catabolic process  lysosomal lumen  collagen-containing extracellular matrix  extracellular exosome  
Ontology : EGO-EBIextracellular region  extracellular space  Golgi lumen  cell adhesion  keratan sulfate biosynthetic process  regulation of bone mineralization  keratan sulfate catabolic process  lysosomal lumen  collagen-containing extracellular matrix  extracellular exosome  
NDEx NetworkOMD
Atlas of Cancer Signalling NetworkOMD
Wikipedia pathwaysOMD
Orthology - Evolution
OrthoDB4958
GeneTree (enSembl)ENSG00000127083
Phylogenetic Trees/Animal Genes : TreeFamOMD
HOGENOMQ99983
Homologs : HomoloGeneOMD
Homology/Alignments : Family Browser (UCSC)OMD
Gene fusions - Rearrangements
Fusion : MitelmanOMD/USP6 [9q22.31/17p13.2]  
Fusion : QuiverOMD
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerOMD [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)OMD
dbVarOMD
ClinVarOMD
MonarchOMD
1000_GenomesOMD 
Exome Variant ServerOMD
GNOMAD BrowserENSG00000127083
Varsome BrowserOMD
Genetic variants : HAPMAP4958
Genomic Variants (DGV)OMD [DGVbeta]
DECIPHEROMD [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisOMD 
Mutations
ICGC Data PortalOMD 
TCGA Data PortalOMD 
Broad Tumor PortalOMD
OASIS PortalOMD [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICOMD  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DOMD
Mutations and Diseases : HGMDOMD
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch OMD
DgiDB (Drug Gene Interaction Database)OMD
DoCM (Curated mutations)OMD (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)OMD (select a term)
intoGenOMD
Cancer3DOMD(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM618926   
Orphanet
DisGeNETOMD
MedgenOMD
Genetic Testing Registry OMD
NextProtQ99983 [Medical]
TSGene4958
GENETestsOMD
Target ValidationOMD
Huge Navigator OMD [HugePedia]
snp3D : Map Gene to Disease4958
BioCentury BCIQOMD
ClinGenOMD
Clinical trials, drugs, therapy
Protein Interactions : CTD4958
Pharm GKB GenePA31921
Clinical trialOMD
Miscellaneous
canSAR (ICR)OMD (select the gene name)
HarmonizomeOMD
DataMed IndexOMD
Probes
Litterature
PubMed14 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineOMD
EVEXOMD
GoPubMedOMD
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Sep 14 14:25:15 CEST 2020

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