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Aliases for SAMD1 Gene

Aliases for SAMD1 Gene

  • Sterile Alpha Motif Domain Containing 1 2 3
  • Sterile Alpha Motif Domain-Containing Protein 1 3 4
  • SAM Domain-Containing Protein 1 4
  • SAM Domain Containing 1 3
  • Atherin 3

External Ids for SAMD1 Gene

Previous GeneCards Identifiers for SAMD1 Gene

  • GC19U990301
  • GC19M014062
  • GC19M014199

Summaries for SAMD1 Gene

GeneCards Summary for SAMD1 Gene

SAMD1 (Sterile Alpha Motif Domain Containing 1) is a Protein Coding gene. An important paralog of this gene is SAMD13.

UniProtKB/Swiss-Prot for SAMD1 Gene

  • May play a role in atherogenesis by immobilizing LDL in the atherial wall.

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SAMD1 Gene

Genomics for SAMD1 Gene

Regulatory Elements for SAMD1 Gene

Genomic Location for SAMD1 Gene

Start:
14,087,840 bp from pter
End:
14,091,036 bp from pter
Size:
3,197 bases
Orientation:
Minus strand

Genomic View for SAMD1 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SAMD1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SAMD1 Gene

Proteins for SAMD1 Gene

  • Protein details for SAMD1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6SPF0-SAMD1_HUMAN
    Recommended name:
    Atherin
    Protein Accession:
    Q6SPF0
    Secondary Accessions:
    • Q6P0R3
    • Q6PIS7
    • Q96IM4

    Protein attributes for SAMD1 Gene

    Size:
    538 amino acids
    Molecular mass:
    56052 Da
    Quaternary structure:
    No Data Available

neXtProt entry for SAMD1 Gene

Proteomics data for SAMD1 Gene at MOPED

Post-translational modifications for SAMD1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SAMD1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SAMD1 Gene

Domains for SAMD1 Gene

Gene Families for SAMD1 Gene

HGNC:
  • SAMD :Sterile alpha motif (SAM) domain containing

Protein Domains for SAMD1 Gene

Suggested Antigen Peptide Sequences for SAMD1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q6SPF0

UniProtKB/Swiss-Prot:

SAMD1_HUMAN :
  • Q6SPF0
Domain:
  • Contains 1 SAM (sterile alpha motif) domain.
genes like me logo Genes that share domains with SAMD1: view

Function for SAMD1 Gene

Molecular function for SAMD1 Gene

UniProtKB/Swiss-Prot Function: May play a role in atherogenesis by immobilizing LDL in the atherial wall.

Gene Ontology (GO) - Molecular Function for SAMD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding --
GO:0043565 sequence-specific DNA binding --
genes like me logo Genes that share ontologies with SAMD1: view

miRNA for SAMD1 Gene

miRTarBase miRNAs that target SAMD1

No data available for Enzyme Numbers (IUBMB) , Phenotypes , Animal Models , Transcription Factor Targeting and HOMER Transcription for SAMD1 Gene

Localization for SAMD1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SAMD1 Gene

Cytoplasm. Secreted.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SAMD1 Gene COMPARTMENTS Subcellular localization image for SAMD1 gene
Compartment Confidence
extracellular 5
nucleus 3
cytosol 2

Gene Ontology (GO) - Cellular Components for SAMD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0005634 nucleus --
GO:0005737 cytoplasm IEA --
genes like me logo Genes that share ontologies with SAMD1: view

Pathways for SAMD1 Gene

SuperPathways for SAMD1 Gene

No Data Available

Interacting Proteins for SAMD1 Gene

Gene Ontology (GO) - Biological Process for SAMD1 Gene

None

No data available for Pathways by source for SAMD1 Gene

Transcripts for SAMD1 Gene

mRNA/cDNA for SAMD1 Gene

Unigene Clusters for SAMD1 Gene

Sterile alpha motif domain containing 1:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SAMD1 Gene

No ASD Table

Relevant External Links for SAMD1 Gene

GeneLoc Exon Structure for
SAMD1
ECgene alternative splicing isoforms for
SAMD1

Expression for SAMD1 Gene

mRNA expression in normal human tissues for SAMD1 Gene

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for SAMD1 Gene

SOURCE GeneReport for Unigene cluster for SAMD1 Gene Hs.140309

mRNA Expression by UniProt/SwissProt for SAMD1 Gene

Q6SPF0-SAMD1_HUMAN
Tissue specificity: Expressed in atherosclerotic lesions, not in normal intima.
genes like me logo Genes that share expressions with SAMD1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for SAMD1 Gene

Orthologs for SAMD1 Gene

This gene was present in the common ancestor of animals.

Orthologs for SAMD1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SAMD1 35
  • 98.53 (n)
  • 98.16 (a)
SAMD1 36
  • 94 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SAMD1 35
  • 89.27 (n)
  • 93.97 (a)
SAMD1 36
  • 69 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Samd1 35
  • 85.29 (n)
  • 91.38 (a)
Samd1 16
Samd1 36
  • 78 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SAMD1 36
  • 69 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia LOC102550189 35
  • 85.48 (n)
  • 90.24 (a)
lizard
(Anolis carolinensis)
Reptilia SAMD1 36
  • 87 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii samd1a 36
  • 36 (a)
OneToMany
samd1b 36
  • 22 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta CG2662 36
  • 12 (a)
OneToMany
Species with no ortholog for SAMD1:
  • 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)
  • cow (Bos Taurus)
  • 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)
  • 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)

Evolution for SAMD1 Gene

ENSEMBL:
Gene Tree for SAMD1 (if available)
TreeFam:
Gene Tree for SAMD1 (if available)

Paralogs for SAMD1 Gene

Paralogs for SAMD1 Gene

Selected SIMAP similar genes for SAMD1 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with SAMD1: view

Variants for SAMD1 Gene

Sequence variations from dbSNP and Humsavar for SAMD1 Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type MAF
VAR_061701 -

Structural Variations from Database of Genomic Variants (DGV) for SAMD1 Gene

Variant ID Type Subtype PubMed ID
dgv3739n71 CNV Loss 21882294
dgv3741n71 CNV Loss 21882294
nsv833761 CNV Loss 17160897
nsv828452 CNV Loss 20364138
nsv828454 CNV Gain 20364138
dgv49n68 CNV Loss 17160897
dgv3744n71 CNV Loss 21882294
nsv911117 CNV Loss 21882294
nsv911119 CNV Loss 21882294
nsv828455 CNV Gain 20364138
esv2677290 CNV Deletion 23128226
esv21807 CNV Loss 19812545

Relevant External Links for SAMD1 Gene

HapMap Linkage Disequilibrium report
SAMD1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SAMD1 Gene

Disorders for SAMD1 Gene

No disorders were found for SAMD1 Gene.

No data available for UniProtKB/Swiss-Prot for SAMD1 Gene

Publications for SAMD1 Gene

  1. Atherin: a newly identified, lesion-specific, LDL-binding protein in human atherosclerosis. (PMID: 16159594) Lees A.M. … Lees R.S. (Atherosclerosis 2005) 3 4 23
  2. Identifying polymer-forming SAM domains. (PMID: 18831011) Meruelo A.D. … Bowie J.U. (Proteins 2009) 23
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 3
  4. Ubiquitin-mediated proteolysis of HuR by heat shock. (PMID: 19322201) Abdelmohsen K. … Gorospe M. (EMBO J. 2009) 3
  5. Proteins recruited by SH3 domains of Ruk/CIN85 adaptor identified by LC-MS/MS. (PMID: 19531213) Havrylov S. … Redowicz M.J. (Proteome Sci 2009) 3

Products for SAMD1 Gene

Sources for SAMD1 Gene

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