Olfactory receptors interact with odorant molecules in the nose, to initiate a neuronal response that triggers the perception of a smell. The olfactory receptor proteins are members of a large family of G-protein-coupled receptors (GPCR) arising from single coding-exon genes. Olfactory receptors share a 7-transmembrane domain structure with many neurotransmitter and hormone rec... See more...

Aliases for OR5D13 Gene

Aliases for OR5D13 Gene

  • Olfactory Receptor Family 5 Subfamily D Member 13 2 3 5
  • Olfactory Receptor OR11-142 3 4
  • Olfactory Receptor OR11-148 3 4
  • Olfactory Receptor 5D13 3 4
  • Olfactory Receptor, Family 5, Subfamily D, Member 13 (Gene/Pseudogene) 2
  • Olfactory Receptor Family 5 Subfamily D Member 13 (Gene/Pseudogene) 2
  • OR5D13 5

External Ids for OR5D13 Gene

Previous GeneCards Identifiers for OR5D13 Gene

  • GC11U990434
  • GC11P055298
  • GC11P055540

Summaries for OR5D13 Gene

Entrez Gene Summary for OR5D13 Gene

  • Olfactory receptors interact with odorant molecules in the nose, to initiate a neuronal response that triggers the perception of a smell. The olfactory receptor proteins are members of a large family of G-protein-coupled receptors (GPCR) arising from single coding-exon genes. Olfactory receptors share a 7-transmembrane domain structure with many neurotransmitter and hormone receptors and are responsible for the recognition and G protein-mediated transduction of odorant signals. The olfactory receptor gene family is the largest in the genome. The nomenclature assigned to the olfactory receptor genes and proteins for this organism is independent of other organisms. This olfactory receptor gene is a segregating pseudogene, where some individuals have an allele that encodes a functional olfactory receptor, while other individuals have an allele encoding a protein that is predicted to be non-functional. [provided by RefSeq, Jun 2015]

GeneCards Summary for OR5D13 Gene

OR5D13 (Olfactory Receptor Family 5 Subfamily D Member 13) is a Protein Coding gene. Among its related pathways are Signaling by GPCR and Olfactory transduction. Gene Ontology (GO) annotations related to this gene include G protein-coupled receptor activity and odorant binding. An important paralog of this gene is OR5D3P.

UniProtKB/Swiss-Prot Summary for OR5D13 Gene

Gene Wiki entry for OR5D13 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for OR5D13 Gene

Genomics for OR5D13 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for OR5D13 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH11J055685 Promoter 0.3 Ensembl 0.2 -87.5 -87537 0.6 ENSG00000254804 piR-47086-060 piR-55361-090 TRIM48 OR4P1P OR4C6 OR5D13
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around OR5D13 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for OR5D13

Top Transcription factor binding sites by QIAGEN in the OR5D13 gene promoter:
  • AML1a
  • AREB6
  • Nkx3-1
  • Nkx3-1 v1
  • Nkx3-1 v2
  • Nkx3-1 v3
  • Nkx3-1 v4
  • Pax-4a
  • POU2F1
  • POU2F1a

Genomic Locations for OR5D13 Gene

Latest Assembly
chr11:55,773,438-55,774,382
(GRCh38/hg38)
Size:
945 bases
Orientation:
Plus strand

Previous Assembly
chr11:55,540,914-55,541,858
(GRCh37/hg19 by Entrez Gene)
Size:
945 bases
Orientation:
Plus strand

Genomic View for OR5D13 Gene

Genes around OR5D13 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
OR5D13 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for OR5D13 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for OR5D13 Gene

Proteins for OR5D13 Gene

  • Protein details for OR5D13 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8NGL4-OR5DD_HUMAN
    Recommended name:
    Olfactory receptor 5D13
    Protein Accession:
    Q8NGL4
    Secondary Accessions:
    • Q6IF68
    • Q6IFC9

    Protein attributes for OR5D13 Gene

    Size:
    314 amino acids
    Molecular mass:
    35447 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAC05998.1; Type=Erroneous initiation; Evidence={ECO:0000305};

neXtProt entry for OR5D13 Gene

Post-translational modifications for OR5D13 Gene

  • Glycosylation at Asn7
  • Modification sites at PhosphoSitePlus

Other Protein References for OR5D13 Gene

ENSEMBL proteins:
REFSEQ proteins:
HORDE protein sequence:

No data available for DME Specific Peptides for OR5D13 Gene

Domains & Families for OR5D13 Gene

Gene Families for OR5D13 Gene

HGNC:
Human Protein Atlas (HPA):
  • G-protein coupled receptors
  • Predicted membrane proteins

Protein Domains for OR5D13 Gene

InterPro:
Blocks:
  • Olfactory receptor signature

Suggested Antigen Peptide Sequences for OR5D13 Gene

GenScript: Design optimal peptide antigens:
  • Olfactory receptor OR11-148 (OR5DD_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q8NGL4

UniProtKB/Swiss-Prot:

OR5DD_HUMAN :
  • Belongs to the G-protein coupled receptor 1 family.
Family:
  • Belongs to the G-protein coupled receptor 1 family.
genes like me logo Genes that share domains with OR5D13: view

Function for OR5D13 Gene

Molecular function for OR5D13 Gene

UniProtKB/Swiss-Prot Function:
Odorant receptor.

Phenotypes From GWAS Catalog for OR5D13 Gene

Gene Ontology (GO) - Molecular Function for OR5D13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004930 G protein-coupled receptor activity IEA --
GO:0004984 olfactory receptor activity IBA 21873635
GO:0005549 odorant binding IBA 21873635
genes like me logo Genes that share ontologies with OR5D13: view
genes like me logo Genes that share phenotypes with OR5D13: view

Animal Models for research

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for OR5D13

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for OR5D13 Gene

Localization for OR5D13 Gene

Subcellular locations from UniProtKB/Swiss-Prot for OR5D13 Gene

Cell membrane. Multi-pass membrane protein.

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 OR5D13 gene
Compartment Confidence
plasma membrane 5

Gene Ontology (GO) - Cellular Components for OR5D13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane TAS --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with OR5D13: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for OR5D13 Gene

Pathways & Interactions for OR5D13 Gene

genes like me logo Genes that share pathways with OR5D13: view

Pathways by source for OR5D13 Gene

Interacting Proteins for OR5D13 Gene

Gene Ontology (GO) - Biological Process for OR5D13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007165 signal transduction IEA --
GO:0007186 G protein-coupled receptor signaling pathway IBA 21873635
GO:0007608 sensory perception of smell IBA 21873635
GO:0050896 response to stimulus IEA --
GO:0050911 detection of chemical stimulus involved in sensory perception of smell IEA --
genes like me logo Genes that share ontologies with OR5D13: view

No data available for SIGNOR curated interactions for OR5D13 Gene

Drugs & Compounds for OR5D13 Gene

No Compound Related Data Available

Transcripts for OR5D13 Gene

mRNA/cDNA for OR5D13 Gene

1 REFSEQ mRNAs :
1 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for OR5D13

Alternative Splicing Database (ASD) splice patterns (SP) for OR5D13 Gene

No ASD Table

Relevant External Links for OR5D13 Gene

GeneLoc Exon Structure for
OR5D13

Expression for OR5D13 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for OR5D13 Gene

Protein differential expression in normal tissues from HIPED for OR5D13 Gene

This gene is overexpressed in Platelet (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for OR5D13 Gene



Protein tissue co-expression partners for OR5D13 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for OR5D13

SOURCE GeneReport for Unigene cluster for OR5D13 Gene:

Hs.553743
genes like me logo Genes that share expression patterns with OR5D13: view

Primer products for research

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for OR5D13 Gene

Orthologs for OR5D13 Gene

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

Orthologs for OR5D13 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia LOC739012 29
  • 98.73 (n)
Species where no ortholog for OR5D13 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • 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)
  • Mouse (Mus musculus)
  • 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 Vase (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 OR5D13 Gene

ENSEMBL:
Gene Tree for OR5D13 (if available)
TreeFam:
Gene Tree for OR5D13 (if available)
Alliance of Genome Resources:
Additional Orthologs for OR5D13

Paralogs for OR5D13 Gene

(446) SIMAP similar genes for OR5D13 Gene using alignment to 1 proteins:

  • OR5DD_HUMAN
genes like me logo Genes that share paralogs with OR5D13: view

Variants for OR5D13 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for OR5D13 Gene

SNP ID Clinical significance and condition Chr 11 pos Variation AA Info Type
rs11230983 -- p.Arg124His
rs297118 -- p.Cys62Tyr
rs7124871 -- p.Arg236Leu

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for OR5D13 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for OR5D13 Gene

Variant ID Type Subtype PubMed ID
dgv1193n100 CNV loss 25217958
dgv1204n100 CNV loss 25217958
dgv1205n100 CNV gain 25217958
dgv12n64 CNV loss 17921354
dgv13n68 CNV loss 17160897
dgv150n27 CNV loss 19166990
dgv1905n54 CNV gain 21841781
dgv1941n54 CNV loss 21841781
dgv212e199 CNV deletion 23128226
dgv50e55 CNV loss 17911159
dgv51e55 CNV loss 17911159
esv22842 CNV gain+loss 19812545
esv2751030 CNV gain 17911159
esv2756713 CNV loss 18971310
esv2759828 CNV gain+loss 17122850
esv2760216 CNV loss 21179565
esv3579771 CNV gain 25503493
esv3579782 CNV gain 25503493
esv3626453 CNV loss 21293372
esv3626454 CNV gain 21293372
nsv1044174 CNV loss 25217958
nsv428256 CNV loss 18775914
nsv437717 CNV loss 16327808
nsv442618 CNV loss 18776908
nsv468566 CNV loss 19166990
nsv469885 CNV loss 16826518
nsv469958 CNV loss 18288195
nsv517440 CNV gain+loss 19592680
nsv554801 CNV loss 21841781
nsv555076 CNV loss 21841781
nsv821668 CNV loss 15273396

Variation tolerance for OR5D13 Gene

Residual Variation Intolerance Score: 71.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.01; 74.94% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for OR5D13 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
OR5D13
Leiden Open Variation Database (LOVD)
OR5D13

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for OR5D13 Gene

Disorders for OR5D13 Gene

Additional Disease Information for OR5D13

No disorders were found for OR5D13 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for OR5D13 Gene

Publications for OR5D13 Gene

  1. The human olfactory receptor gene family. (PMID: 14983052) Malnic B … Buck LB (Proceedings of the National Academy of Sciences of the United States of America 2004) 3 4
  2. Personal receptor repertoires: olfaction as a model. (PMID: 22908908) Olender T … Lancet D (BMC genomics 2012) 3
  3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. (PMID: 21873635) Gaudet P … Thomas PD (Briefings in bioinformatics 2011) 3
  4. A probabilistic classifier for olfactory receptor pseudogenes. (PMID: 16939646) Menashe I … Lancet D (BMC bioinformatics 2006) 3

Products for OR5D13 Gene

Sources for OR5D13 Gene