SAMD1 Gene
protein-coding GIFtS: 40
GCID: GC19M014199
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sterile alpha motif domain containing 1
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Aliases
for SAMD1 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| Sterile Alpha Motif Domain Containing 11 2 | | Sterile Alpha Motif Domain-Containing Protein 12 3 | | Atherin1 | | SAM Domain Containing 12 | | SAM Domain-Containing Protein 13 |
Export aliases for SAMD1 gene to outside databasesPrevious GC identifers: GC19U990301 GC19M014062 |
Summaries
for SAMD1 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
UniProtKB/Swiss-Prot: SAMD1_HUMAN, Q6SPF0Function: May play a role in atherogenesis by immobilizing LDL in the atherial wall
|
Genomic Views
for SAMD1 gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000019.9 NC_018930.1 NT_011295.11
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the SAMD1 gene promoter:
p53 POU3F1 NF-kappaB Tal-1beta E47 PPAR-gamma1 PPAR-gamma2 ITF-2 NF-kappaB1
Other transcription factors
Search SABiosciences Chromatin IP Primers for SAMD1
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SAMD1 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 19p13.12 Ensembl cytogenetic band: 19p13.12 HGNC cytogenetic band: 19p13.13SAMD1 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 19 GeneLoc Exon Structure GeneLoc location for GC19M014199: view genomic region
(about GC identifiers)
Start:
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14,198,652 bp from pter |
End:
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14,201,848 bp from pter |
Size:
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3,197 bases |
Orientation:
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minus strand |
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Proteins
for SAMD1 gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: SAMD1_HUMAN, Q6SPF0 (See
protein sequence)Recommended Name: Atherin Size: 538 amino acids; 56052 Da
Subcellular location: Cytoplasm. Secreted
Caution: Due to its high GC content it turned out to be difficult to sequence the 5' end of the gene encoding theN-terminal proline-rich region of the protein and to unambiguously determine which sequence is correct. We display thesequence described in PubMed:16159594. This sequence fits better with orthologous sequences but is not consistent withthe human reference genome sequence
Secondary accessions: Q6P0R3 Q6PIS7 Q96IM4Explore the universe of human proteins at neXtProt for SAMD1: NX_Q6SPF0
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q6SPF0
SAMD1 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_612361.1
ENSEMBL proteins: ENSP00000431971 ENSP00000269724
Human Recombinant Protein Products:
Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0005576 | extracellular region |
IEA | -- | | GO:0005737 | cytoplasm |
IEA | -- |
SAMD1 for ontologies About GeneDecksing
SAMD1 Antibody Products:
Assay Products for SAMD1: |
Protein
Domains /
Families
for SAMD1 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
SAMD1 for domains About GeneDecksing
3 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q6SPF0ProtoNet protein and cluster: Q6SPF0 1 Blocks protein family: IPB001660 Sterile alpha motif SAM
UniProtKB/Swiss-Prot: SAMD1_HUMAN, Q6SPF0Similarity: Contains 1 SAM (sterile alpha motif) domain |
Function
for SAMD1 gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Function Summary:
UniProtKB/Swiss-Prot: SAMD1_HUMAN, Q6SPF0Function: May play a role in atherogenesis by immobilizing LDL in the atherial wall
Clone
Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SAMD1 (see all 2)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SAMD1 (see all 2)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
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Synthesis Service for SAMD1 | |  | Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat SAMD1 |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SAMD1 |
|
Pathways & Interactions
for SAMD1 gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SAMD1
STRING Interaction
Network Preview (showing 2 interactants - click image to see more details)
2 Interacting proteins for SAMD1 (ENSP000002697244) via UniProtKB, MINT, STRING, and/or I2DAbout this table
|
Drugs & Compounds
for SAMD1 gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for SAMD1
Search CenterWatch for drugs/clinical trials and news about SAMD1
|
Transcripts
for SAMD1 gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for SAMD1 gene: NM_138352.1 Unigene Cluster for SAMD1: Sterile alpha motif domain containing 1 Hs.140309 [show with all ESTs]Unigene Representative Sequence: AY4538403 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000533683(uc010xnl.2) ENST00000269724 ENST00000541938
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SAMD1 (see all 2)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SAMD1 (see all 2)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: SAMD1 (NM_138352) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for SAMD1 | | | Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat SAMD1 |
Additional cDNA sequence: AY453840.1 BC007384.2 BC030129.2 BC065477.1 BC080588.1 7 DOTS entries: DT.97781471 DT.454102 DT.100812555 DT.100812556 DT.415619 DT.99983488 DT.95272179 24/167 AceView cDNA sequences (see all 167): BU620639 N45729 AI123580 BQ005154 AI271358 CA449494 AI186973 AA471046 AA682370 AW131729 AW236552 AI660679 CR607932 BC030129 BE746961 AW138958 AA287185 AA029172 BM842690 AI379283 BF061129 AI470106 BF194967 BF058975
GeneLoc Exon Structure
|
Expression
for SAMD1 gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| SAMD1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: CCCCCCTTCT
About this image
See SAMD1 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for SAMD1
SOURCE GeneReport for Unigene cluster: Hs.140309
UniProtKB/Swiss-Prot: SAMD1_HUMAN, Q6SPF0Tissue specificity: Expressed in atherosclerotic lesions, not in normal intima
SABiosciences Custom PCR Arrays for SAMD1
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for SAMD1
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat SAMD1 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SAMD1 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SAMD1 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SAMD1 |
Orthologs
for SAMD1 gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the common ancestor of animals.
Orthologs for SAMD1 gene from 4/13 species (see all 13) About this table
ENSEMBL Gene Tree for SAMD1 (if available)
TreeFam Gene Tree for SAMD1 (if available) |
Paralogs
for SAMD1 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for SAMD1 gene
- SAMD132
4 SIMAP similar genes for SAMD1 using alignment to 3 protein entries: SAMD1_HUMAN (see all proteins):HPH1 SAMD13 L3MBTL4 PHC1
SAMD1 for paralogs About GeneDecksing
|
Genomic Variants
for SAMD1 gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 2 variations for SAMD1
2 CNVs: 73314 5089 | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SAMD1 |
|
Disorders
/ Diseases
for SAMD1 gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
SAMD1 for disorders About GeneDecksing
1  disease for SAMD1: About MalaCardsatherosclerosis
Export disorders for SAMD1 gene to outside databases
|
Publications
for SAMD1 gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for SAMD1 gene, integrated from 9 sources (see all 13):
(articles sorted by number of sources associating them with SAMD1) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Atherin: a newly identified, lesion-specific, LDL-binding protein in human atherosclerosis. (PubMed id 16159594)1, 2, 9 Lees A.M.... Lees R.S. (2005)
- A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
- Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. (PubMed id 20068231)2 Olsen J.V....Mann M. (2010)
- Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions. (PubMed id 19690332)2 Mayya V.... Han D.K. (2009)
- Ubiquitin-mediated proteolysis of HuR by heat shock. (PubMed id 19322201)1 Abdelmohsen K....Gorospe M. (2009)
- Proteins recruited by SH3 domains of Ruk/CIN85 adaptor identified by LC-MS/MS. (PubMed id 19531213)1 Havrylov S....Redowicz M.J. (2009)
- Kinase-selective enrichment enables quantitative phosphoproteomics of the kinome across the cell cycle. (PubMed id 18691976)2 Daub H.... Mann M. (2008)
- A quantitative atlas of mitotic phosphorylation. (PubMed id 18669648)2 Dephoure N.... Gygi S.P. (2008)
- Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)2 Olsen J.V....Mann M. (2006)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
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External Searches for SAMD1 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
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Genome Databases showing SAMD1 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing SAMD1 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing SAMD1 gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for SAMD1 | Pharmacogenomics, SNPs, Pathways |
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| | |
About This Section
| Patent Information for SAMD1 gene:
Search GeneIP for patents involving SAMD1
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for SAMD1 gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
About This Section
|
 | |
 | |
 |
| | |  | Browse OriGene Antibodies | | Browse OriGene shRNA RFPs | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for SAMD1 | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for SAMD1 | | | Browse OriGene Protein Over-expression Lysates | | Browse OriGene Fluorogenic Cell Assay Kits | | | Browse OriGene siRNAs | | Browse 3'-UTR reporter clones for miRNA target validation | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SAMD1 | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SAMD1 | | | Browse OriGene GFP tagged cDNA clones in CMV expression vector | | Browse OriGene MicroRNA Expression Plasmids | | | Browse OriGene basic RS shRNAs | | Browse OriGene validated miRNA SYBR primer pairs | | | Browse OriGene full length recombinant human proteins expressed in human HEK293 cells | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling | | | OriGene Custom Antibody Services for SAMD1 | | OriGene Custom Protein Services for SAMD1 | | | OriGene Custom Immunoassay Development | | |
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| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat SAMD1 | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SAMD1 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SAMD1 | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat SAMD1 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SAMD1 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SAMD1 |
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 |  |  |  | |
| | | | Search Tocris compounds for SAMD1 |
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 | | | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SAMD1 |
|  |  |  | | | | Search ThermoFisher Antibodies for SAMD1 |
| | | Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat SAMD1 |
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