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Aliases for SMCO1 Gene

Aliases for SMCO1 Gene

  • Single-Pass Membrane Protein With Coiled-Coil Domains 1 2 3 4 5
  • C3orf43 3 4
  • Single-Pass Membrane And Coiled-Coil Domain-Containing Protein 1 3
  • Chromosome 3 Open Reading Frame 43 2

External Ids for SMCO1 Gene

Previous HGNC Symbols for SMCO1 Gene

  • C3orf43

Previous GeneCards Identifiers for SMCO1 Gene

  • GC03M196234

Summaries for SMCO1 Gene

GeneCards Summary for SMCO1 Gene

SMCO1 (Single-Pass Membrane Protein With Coiled-Coil Domains 1) is a Protein Coding gene.

Additional gene information for SMCO1 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 SMCO1 Gene

Genomics for SMCO1 Gene

Regulatory Elements for SMCO1 Gene

Enhancers for SMCO1 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
GH03H196190 1.9 FANTOM5 Ensembl ENCODE dbSUPER 5.3 +323.0 322966 5.6 HDGF PKNOX1 SIN3A ARID4B YBX1 TCF12 ZNF766 GATA2 ZNF143 ZNF207 ENSG00000226345 ENSG00000213358 RPS29P3 RNU7-18P TFRC TM4SF19 RNU6-910P SLC51A UBXN7 LINC00885
GH03H196195 0.2 dbSUPER 5.3 +319.8 319765 0.1 SMCO1 LOC105374303 ENSG00000222335
GH03H196511 1.3 ENCODE dbSUPER 0.7 +3.0 2956 1.5 ATF1 ARNT TCF12 ZNF766 GATA2 ELK1 ZNF416 ATF7 RUNX3 NCOA1 UBXN7 RNF168 WDR53 SDHAP1 SDHAP2 ENSG00000230732 LINC00969 SMCO1 LOC105374307
GH03H196518 1.2 ENCODE dbSUPER 0.7 -3.9 -3941 1.1 ATF1 ARID4B ZNF2 ZBTB7B SLC30A9 GATA2 ZNF143 ATF7 REST PPARG SMCO1 ENSG00000213358
GH03H196527 1.6 FANTOM5 ENCODE dbSUPER 0.4 -13.2 -13178 1.8 PKNOX1 ATF1 ARNT SIN3A YY1 TCF12 GTF3C2 ZNF766 GATA2 ZNF143 FBXO45 RNF168 SDHAP1 SDHAP2 LINC00969 ENSG00000230732 WDR53 MUC20P1 UBXN7 CEP19
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SMCO1 on UCSC Golden Path with GeneCards custom track

Genomic Locations for SMCO1 Gene

Genomic Locations for SMCO1 Gene
chr3:196,506,877-196,515,366
(GRCh38/hg38)
Size:
8,490 bases
Orientation:
Minus strand
chr3:196,233,748-196,242,237
(GRCh37/hg19)

Genomic View for SMCO1 Gene

Genes around SMCO1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SMCO1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SMCO1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SMCO1 Gene

Proteins for SMCO1 Gene

  • Protein details for SMCO1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q147U7-SMCO1_HUMAN
    Recommended name:
    Single-pass membrane and coiled-coil domain-containing protein 1
    Protein Accession:
    Q147U7
    Secondary Accessions:
    • B3KW20

    Protein attributes for SMCO1 Gene

    Size:
    214 amino acids
    Molecular mass:
    24598 Da
    Quaternary structure:
    No Data Available

neXtProt entry for SMCO1 Gene

Post-translational modifications for SMCO1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SMCO1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SMCO1 Gene

Domains & Families for SMCO1 Gene

Gene Families for SMCO1 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for SMCO1 Gene

InterPro:
ProtoNet:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SMCO1: view

No data available for Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for SMCO1 Gene

Function for SMCO1 Gene

Phenotypes From GWAS Catalog for SMCO1 Gene

Phenotypes for SMCO1 Gene

GenomeRNAi human phenotypes for SMCO1:
genes like me logo Genes that share phenotypes with SMCO1: view

Animal Model Products

Inhibitory RNA Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SMCO1 Gene

Localization for SMCO1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SMCO1 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 SMCO1 gene
Compartment Confidence
plasma membrane 2
nucleus 2
cytosol 2
extracellular 1

Gene Ontology (GO) - Cellular Components for SMCO1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with SMCO1: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for SMCO1 Gene

Pathways & Interactions for SMCO1 Gene

SuperPathways for SMCO1 Gene

No Data Available

Interacting Proteins for SMCO1 Gene

STRING Interaction Network Preview (showing 2 interactants - click image to see details)
http://version10.5.string-db.org/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000380671%0d%0a9606.ENSP00000387699%0d%0a9606.ENSP00000262211%0d%0a
Selected Interacting proteins: Q147U7-SMCO1_HUMAN ENSP00000380671 for SMCO1 Gene via IID STRING

Gene Ontology (GO) - Biological Process for SMCO1 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for SMCO1 Gene

Drugs & Compounds for SMCO1 Gene

No Compound Related Data Available

Transcripts for SMCO1 Gene

mRNA/cDNA for SMCO1 Gene

(2) REFSEQ mRNAs :
(20) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for SMCO1 Gene

No ASD Table

Relevant External Links for SMCO1 Gene

GeneLoc Exon Structure for
SMCO1
ECgene alternative splicing isoforms for
SMCO1

Expression for SMCO1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SMCO1 Gene

mRNA differential expression in normal tissues according to GTEx for SMCO1 Gene

This gene is overexpressed in Heart - Left Ventricle (x28.0), Muscle - Skeletal (x13.8), and Heart - Atrial Appendage (x8.3).

Protein differential expression in normal tissues from HIPED for SMCO1 Gene

This gene is overexpressed in Stomach (45.2) and Colon muscle (23.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for SMCO1 Gene



NURSA nuclear receptor signaling pathways regulating expression of SMCO1 Gene:

SMCO1
genes like me logo Genes that share expression patterns with SMCO1: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , 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 SMCO1 Gene

Orthologs for SMCO1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SMCO1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia C3H3orf43 33
  • 98.91 (n)
SMCO1 34
  • 98 (a)
OneToOne
dog
(Canis familiaris)
Mammalia C33H3orf43 33
  • 87.23 (n)
SMCO1 34
  • 84 (a)
OneToOne
cow
(Bos Taurus)
Mammalia C1H3orf43 33
  • 86.45 (n)
MGC152484 34
  • 81 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia LOC100911042 33
  • 81.31 (n)
mouse
(Mus musculus)
Mammalia Smco1 16 34 33
  • 80.37 (n)
oppossum
(Monodelphis domestica)
Mammalia SMCO1 34
  • 63 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SMCO1 34
  • 50 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia c3orf43 33
  • 46.77 (n)
Species where no ortholog for SMCO1 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)
  • 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)
  • 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for SMCO1 Gene

ENSEMBL:
Gene Tree for SMCO1 (if available)
TreeFam:
Gene Tree for SMCO1 (if available)

Paralogs for SMCO1 Gene

No data available for Paralogs for SMCO1 Gene

Variants for SMCO1 Gene

Sequence variations from dbSNP and Humsavar for SMCO1 Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type
rs1000008254 -- 196,508,171(+) CCATA(A/C)AACTC reference, missense
rs1000104741 -- 196,514,302(+) AGTTG(C/T)TGCTT intron-variant
rs1001038201 -- 196,514,284(+) CAATT(A/G)CACGA intron-variant
rs1001132822 -- 196,508,445(+) GTTGT(A/G)ATTTA intron-variant
rs1001161142 -- 196,509,156(+) GCCAT(G/T)CTCCT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SMCO1 Gene

Variant ID Type Subtype PubMed ID
nsv469831 CNV gain 16826518
nsv1003066 CNV gain 25217958
esv2053432 CNV deletion 18987734

Variation tolerance for SMCO1 Gene

Residual Variation Intolerance Score: 80% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 7.73; 83.12% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SMCO1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SMCO1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SMCO1 Gene

Disorders for SMCO1 Gene

Relevant External Links for SMCO1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SMCO1

No disorders were found for SMCO1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SMCO1 Gene

Publications for SMCO1 Gene

  1. 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 60
  2. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 60
  3. The DNA sequence, annotation and analysis of human chromosome 3. (PMID: 16641997) Muzny DM … Gibbs RA (Nature 2006) 4 60
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 4 60
  5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg RL … Mammalian Gene Collection Program Team (Proceedings of the National Academy of Sciences of the United States of America 2002) 3 60

Products for SMCO1 Gene

Sources for SMCO1 Gene

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