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Aliases for SMCO3 Gene

Aliases for SMCO3 Gene

  • Single-Pass Membrane Protein With Coiled-Coil Domains 3 2 3 5
  • C12orf69 3 4
  • Single-Pass Membrane And Coiled-Coil Domain-Containing Protein 3 3
  • Chromosome 12 Open Reading Frame 69 2

External Ids for SMCO3 Gene

Previous HGNC Symbols for SMCO3 Gene

  • C12orf69

Previous GeneCards Identifiers for SMCO3 Gene

  • GC12M014961

Summaries for SMCO3 Gene

GeneCards Summary for SMCO3 Gene

SMCO3 (Single-Pass Membrane Protein With Coiled-Coil Domains 3) is a Protein Coding gene.

Additional gene information for SMCO3 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SMCO3 Gene

Genomics for SMCO3 Gene

GeneHancer (GH) Regulatory Elements for SMCO3 Gene

Promoters and enhancers for SMCO3 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
GH12I014814 Promoter 0.5 EPDnew 550.8 0.0 -20 0.1 SMCO3 GC12P014829 C12orf60
GH12I014945 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 10.4 -141.1 -141132 19.1 HDGF PKNOX1 ATF1 FOXA2 SMAD1 YBX1 IRF4 YY1 ZNF766 GATA2 ARHGDIB ERP27 PDE6H WBP11 ART4 H2AFJ HIST4H4 SMCO3 C12orf60 ENSG00000256339
GH12I014883 Promoter/Enhancer 1.9 EPDnew Ensembl ENCODE 10.5 -70.8 -70789 3.2 PKNOX1 SMAD1 NFIB EBF1 CTBP1 GATA3 POLR2A ATF7 RCOR1 IKZF2 MGP ENSG00000256339 ERP27 PDE6H ART4 SMCO3 ARHGDIB H2AFJ HIST4H4 WBP11
GH12I014755 Enhancer 0.9 Ensembl ENCODE dbSUPER 11 +57.5 57462 2.1 CTCF SCRT2 MAFK RUNX3 RAD21 SP7 C12orf60 GUCY2C SMCO3 WBP11 ENSG00000261324 LOC105369669 GC12M014736 ENSG00000214772
GH12I014980 Enhancer 1 Ensembl ENCODE dbSUPER 9.5 -168.3 -168304 3.4 MAX REST RELA GABPA BCL11A POLR2A IKZF1 MYC RUNX3 IKZF2 ART4 ENSG00000256339 ERP27 WBP11 C12orf60 HIST4H4 H2AFJ SMCO3 ARHGDIB PDE6H
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SMCO3 on UCSC Golden Path with GeneCards custom track

Genomic Locations for SMCO3 Gene

Genomic Locations for SMCO3 Gene
chr12:14,803,723-14,814,182
(GRCh38/hg38)
Size:
10,460 bases
Orientation:
Minus strand
chr12:14,957,584-14,967,116
(GRCh37/hg19)

Genomic View for SMCO3 Gene

Genes around SMCO3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SMCO3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SMCO3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SMCO3 Gene

Proteins for SMCO3 Gene

  • Protein details for SMCO3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    A2RU48-SMCO3_HUMAN
    Recommended name:
    Single-pass membrane and coiled-coil domain-containing protein 3
    Protein Accession:
    A2RU48
    Secondary Accessions:
    • Q8NAI5

    Protein attributes for SMCO3 Gene

    Size:
    225 amino acids
    Molecular mass:
    24877 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAC03930.1; Type=Frameshift; Positions=219; Evidence={ECO:0000305};

neXtProt entry for SMCO3 Gene

Post-translational modifications for SMCO3 Gene

No Post-translational modifications

Other Protein References for SMCO3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SMCO3 Gene

Domains & Families for SMCO3 Gene

Gene Families for SMCO3 Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins

Protein Domains for SMCO3 Gene

InterPro:
ProtoNet:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SMCO3: view

No data available for Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for SMCO3 Gene

Function for SMCO3 Gene

Gene Ontology (GO) - Molecular Function for SMCO3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25416956
genes like me logo Genes that share ontologies with SMCO3: view

Phenotypes for SMCO3 Gene

GenomeRNAi human phenotypes for SMCO3:
genes like me logo Genes that share phenotypes with SMCO3: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for SMCO3 Gene

Localization for SMCO3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SMCO3 Gene

Membrane; Single-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 SMCO3 gene
Compartment Confidence
mitochondrion 2
cytosol 2
plasma membrane 1
peroxisome 1
nucleus 1

Gene Ontology (GO) - Cellular Components for SMCO3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with SMCO3: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for SMCO3 Gene

Pathways & Interactions for SMCO3 Gene

SuperPathways for SMCO3 Gene

No Data Available

Interacting Proteins for SMCO3 Gene

Gene Ontology (GO) - Biological Process for SMCO3 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for SMCO3 Gene

Drugs & Compounds for SMCO3 Gene

No Compound Related Data Available

Transcripts for SMCO3 Gene

mRNA/cDNA for SMCO3 Gene

(2) REFSEQ mRNAs :
(3) Additional mRNA sequences :
(15) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for SMCO3 Gene

Single-pass membrane protein with coiled-coil domains 3:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for SMCO3 Gene

No ASD Table

Relevant External Links for SMCO3 Gene

GeneLoc Exon Structure for
SMCO3
ECgene alternative splicing isoforms for
SMCO3

Expression for SMCO3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SMCO3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SMCO3 Gene

This gene is overexpressed in Nerve - Tibial (x9.9) and Kidney - Cortex (x4.3).

Protein differential expression in normal tissues from HIPED for SMCO3 Gene

This gene is overexpressed in Plasma (56.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for SMCO3 Gene



NURSA nuclear receptor signaling pathways regulating expression of SMCO3 Gene:

SMCO3

SOURCE GeneReport for Unigene cluster for SMCO3 Gene:

Hs.220931
genes like me logo Genes that share expression patterns with SMCO3: view

Primer Products

No data available for Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for SMCO3 Gene

Orthologs for SMCO3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SMCO3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SMCO3 33 34
  • 99.7 (n)
dog
(Canis familiaris)
Mammalia SMCO3 33 34
  • 92.3 (n)
cow
(Bos Taurus)
Mammalia SMCO3 33 34
  • 89.63 (n)
mouse
(Mus musculus)
Mammalia Smco3 33 16 34
  • 83.56 (n)
rat
(Rattus norvegicus)
Mammalia LOC100912527 33
  • 80 (n)
oppossum
(Monodelphis domestica)
Mammalia SMCO3 34
  • 76 (a)
OneToOne
chicken
(Gallus gallus)
Aves C1H12ORF69 33
  • 64.3 (n)
SMCO3 34
  • 58 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SMCO3 34
  • 54 (a)
OneToOne
Species where no ortholog for SMCO3 was found in the sources mined by GeneCards:
  • 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)
  • 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)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for SMCO3 Gene

ENSEMBL:
Gene Tree for SMCO3 (if available)
TreeFam:
Gene Tree for SMCO3 (if available)

Paralogs for SMCO3 Gene

No data available for Paralogs for SMCO3 Gene

Variants for SMCO3 Gene

Sequence variations from dbSNP and Humsavar for SMCO3 Gene

SNP ID Clin Chr 12 pos Variation AA Info Type
rs1000222940 -- 14,809,439(-) G/T intron_variant
rs1000225158 -- 14,816,787(-) C/T upstream_transcript_variant
rs1000254290 -- 14,809,151(-) A/G intron_variant
rs1000402866 -- 14,810,367(-) G/A intron_variant
rs1000596666 -- 14,816,367(-) A/G 5_prime_UTR_variant, genic_upstream_transcript_variant

Variation tolerance for SMCO3 Gene

Residual Variation Intolerance Score: 67.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.16; 75.78% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SMCO3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SMCO3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for SMCO3 Gene

Disorders for SMCO3 Gene

Additional Disease Information for SMCO3

No disorders were found for SMCO3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SMCO3 Gene

Publications for SMCO3 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  3. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
  4. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin EL … Gygi SP (Cell 2015) 3 58
  5. A proteome-scale map of the human interactome network. (PMID: 25416956) Rolland T … Vidal M (Cell 2014) 3 58

Products for SMCO3 Gene

Sources for SMCO3 Gene

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