SAMD13 Gene (Protein Coding)

Sterile Alpha Motif Domain Containing 13

GC01P084298
GIFtS:
29
See more...

Aliases for SAMD13 Gene

Aliases for SAMD13 Gene

  • Sterile Alpha Motif Domain Containing 13 2 3 5
  • Sterile Alpha Motif Domain-Containing Protein 13 3 4
  • SAM Domain-Containing Protein 13 3 4
  • Dnaj-Like Protein (LOC148418) 3
  • HSD-41 3
  • HSD-42 3
  • SAMD13 5

External Ids for SAMD13 Gene

Previous GeneCards Identifiers for SAMD13 Gene

  • GC01P084477
  • GC01P084536
  • GC01P084764
  • GC01P082874
  • GC01P084274

Summaries for SAMD13 Gene

GeneCards Summary for SAMD13 Gene

SAMD13 (Sterile Alpha Motif Domain Containing 13) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include sequence-specific DNA binding. An important paralog of this gene is SAMD1.

Additional gene information for SAMD13 Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SAMD13 Gene

Genomics for SAMD13 Gene

GeneHancer (GH) Regulatory Elements Pubs

Download GeneHancer 2017 data
Promoters and enhancers for SAMD13 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
GH01J084298 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 606.6 +2.6 2627 7 PRDM10 ZNF629 SIX5 IKZF1 ZNF692 TARDBP LARP7 STAT3 PRDM1 MTA2 DNASE2B SAMD13 HSALNG0004798 lnc-GNG5-9 ENSG00000271576 BCL10 UOX RPF1 LOC107985046
GH01J084142 Promoter/Enhancer 1.4 EPDnew Ensembl ENCODE dbSUPER 12.5 -152.6 -152639 6.7 POLR2A JUND ZNF316 FOS YY1 FOSL2 JUNB BHLHE40 MAFK REST PRKACB SAMD13 RPF1 RF00994-031 piR-56038-002 LOC107985046
GH01J084270 Enhancer 1 Ensembl ENCODE CraniofacialAtlas 11.4 -26.2 -26200 3.2 TEAD4 FOXA1 IKZF2 POLR2A EED RELB RUNX3 EZH2 BCLAF1 NR2C2 SAMD13 DNASE2B UOX RPF1 SYDE2 ENSG00000199959 LOC107985046 LOC112268230 lnc-GNG5-9 lnc-PRKACB-5
GH01J084405 Promoter/Enhancer 1 EPDnew ENCODE 10.5 +108.6 108588 3.2 IKZF1 POLR2A MNT RAD21 NFE2 FOXA2 YY1 ZBTB33 JUND FOSL1 DNASE2B SAMD13 ENSG00000199959 piR-60885-004 RPF1 lnc-GNG5-1
GH01J084155 Enhancer 0.9 ENCODE dbSUPER 11.1 -141.8 -141833 1.2 ZNF629 ZIC2 SP1 JUND NFE2 FOS OSR2 JUN EP300 ZNF112 SAMD13 piR-35062-001 NONHSAG001943.2 PRKACB LOC107985046
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SAMD13 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for SAMD13

Top Transcription factor binding sites by QIAGEN in the SAMD13 gene promoter:
  • HFH-1
  • Nkx2-5
  • POU2F1
  • POU2F1a

Genomic Locations for SAMD13 Gene

Genomic Locations for SAMD13 Gene
chr1:84,298,366-84,389,957
(GRCh38/hg38)
Size:
91,592 bases
Orientation:
Plus strand
chr1:84,764,049-84,855,640
(GRCh37/hg19)
Size:
91,592 bases
Orientation:
Plus strand

Genomic View for SAMD13 Gene

Genes around SAMD13 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SAMD13 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SAMD13 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for SAMD13 Gene

Proteins for SAMD13 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for SAMD13 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q5VXD3-SAM13_HUMAN
    Recommended name:
    Sterile alpha motif domain-containing protein 13
    Protein Accession:
    Q5VXD3
    Secondary Accessions:
    • B3KPW8
    • D3DT11
    • Q53AI4
    • Q5VXD2
    • Q5VXD4

    Protein attributes for SAMD13 Gene

    Size:
    122 amino acids
    Molecular mass:
    13570 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for SAMD13 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SAMD13 Gene

Protein Expression for SAMD13 Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for SAMD13 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SAMD13 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SAMD13 Gene

Domains & Families for SAMD13 Gene

Gene Families for SAMD13 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for SAMD13 Gene

InterPro:
Blocks:
  • Sterile alpha motif SAM
ProtoNet:

Suggested Antigen Peptide Sequences for SAMD13 Gene

GenScript: Design optimal peptide antigens:
  • SAMD13 protein (A2VCQ9_HUMAN)
  • Sterile alpha motif domain-containing protein 13 (SAM13_HUMAN)
genes like me logo Genes that share domains with SAMD13: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for SAMD13 Gene

Function for SAMD13 Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line

Phenotypes From GWAS Catalog for SAMD13 Gene

Gene Ontology (GO) - Molecular Function for SAMD13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003682 chromatin binding IBA 21873635
GO:0005515 protein binding IEA --
GO:0042393 histone binding IBA 21873635
genes like me logo Genes that share ontologies with SAMD13: view
genes like me logo Genes that share phenotypes with SAMD13: view

Animal Model Products

CRISPR Products

miRNA for SAMD13 Gene

miRTarBase miRNAs that target SAMD13

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SAMD13

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SAMD13 Gene

Localization for SAMD13 Gene

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 SAMD13 gene
Compartment Confidence
cytosol 2
extracellular 0
nucleus 0

Subcellular locations from the

Human Protein Atlas (HPA)
  • Mitochondria (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SAMD13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IBA 21873635
genes like me logo Genes that share ontologies with SAMD13: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for SAMD13 Gene

Pathways & Interactions for SAMD13 Gene

PathCards logo

SuperPathways for SAMD13 Gene

No Data Available

Interacting Proteins for SAMD13 Gene

STRING Interaction Network Preview (showing top 1 STRING interactants - click image to see details)
STRING Interaction Network
Selected Interacting proteins: ENSP00000359707 Q5VXD3-SAM13_HUMAN for SAMD13 Gene via STRING IID

GPS-Prot Interaction Network for SAMD13

Gene Ontology (GO) - Biological Process for SAMD13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0045892 negative regulation of transcription, DNA-templated IBA 21873635
genes like me logo Genes that share ontologies with SAMD13: view

No data available for Pathways by source and SIGNOR curated interactions for SAMD13 Gene

Drugs & Compounds for SAMD13 Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for SAMD13 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

mRNA/cDNA for SAMD13 Gene

3 REFSEQ mRNAs :
7 NCBI additional mRNA sequence :
9 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SAMD13

Alternative Splicing Database (ASD) splice patterns (SP) for SAMD13 Gene

No ASD Table

Relevant External Links for SAMD13 Gene

GeneLoc Exon Structure for
SAMD13

Expression for SAMD13 Gene

Products:

  1. Primer
  2. Gene Expression Assay

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SAMD13 Gene

mRNA expression in normal human tissues for SAMD13 Gene
mRNA expression by BioGPS for SAMD13 GenemRNA expression by GTEx for SAMD13 Gene

mRNA differential expression in normal tissues according to GTEx for SAMD13 Gene

This gene is overexpressed in Colon - Transverse (x6.2) and Testis (x5.9).

Protein differential expression in normal tissues from HIPED for SAMD13 Gene

This gene is overexpressed in Skin (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for SAMD13 Gene



Protein tissue co-expression partners for SAMD13 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SAMD13

SOURCE GeneReport for Unigene cluster for SAMD13 Gene:

Hs.591445
genes like me logo Genes that share expression patterns with SAMD13: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for SAMD13 Gene

Orthologs for SAMD13 Gene

This gene was present in the common ancestor of animals.

Orthologs for SAMD13 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
 Mammalia SAMD13 30 31
  • 99.71 (n)
 OneToOne
Cow
(Bos Taurus)
 Mammalia SAMD13 31
  • 97 (a)
 OneToOne
Mouse
(Mus musculus)
 Mammalia Samd13 31
  • 94 (a)
 OneToOne
Platypus
(Ornithorhynchus anatinus)
 Mammalia SAMD13 31
  • 87 (a)
 OneToOne
Oppossum
(Monodelphis domestica)
 Mammalia SAMD13 31
  • 23 (a)
 OneToOne
Chicken
(Gallus gallus)
 Aves SAMD13 31
  • 34 (a)
 OneToOne
Lizard
(Anolis carolinensis)
 Reptilia SAMD13 31
  • 86 (a)
 OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
 Amphibia samd13 30
  • 77.24 (n)
African clawed frog
(Xenopus laevis)
 Amphibia Xl.32470 30
Zebrafish
(Danio rerio)
 Actinopterygii samd13 30 31
  • 73.54 (n)
 OneToOne
Fruit Fly
(Drosophila melanogaster)
 Insecta CG2662 31
  • 9 (a)
 OneToMany
Species where no ortholog for SAMD13 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • Dog (Canis familiaris)
  • 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)
  • 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)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for SAMD13 Gene

ENSEMBL:
Gene Tree for SAMD13 (if available)
TreeFam:
Gene Tree for SAMD13 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SAMD13: view image

Paralogs for SAMD13 Gene

Paralogs for SAMD13 Gene

(13) SIMAP similar genes for SAMD13 Gene using alignment to 3 proteins:

  • SAM13_HUMAN
  • A2VCQ9_HUMAN
  • H7BZX5_HUMAN
genes like me logo Genes that share paralogs with SAMD13: view

Variants for SAMD13 Gene

Products:

  1. SNP Genotyping and Copy Number Assay

Additional dbSNP identifiers (rs#s) for SAMD13 Gene

Structural Variations from Database of Genomic Variants (DGV) for SAMD13 Gene

Variant ID Type Subtype PubMed ID
nsv1744 CNV insertion 18451855
nsv830414 CNV gain 17160897
nsv830426 CNV gain 17160897

Variation tolerance for SAMD13 Gene

Residual Variation Intolerance Score: 48% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.10; 2.26% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SAMD13 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SAMD13

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for SAMD13 Gene

Disorders for SAMD13 Gene

Additional Disease Information for SAMD13

ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform

No disorders were found for SAMD13 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SAMD13 Gene

Publications for SAMD13 Gene

  1. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory SG … Prigmore E (Nature 2006) 3 4
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4
  3. Genome-wide CRISPR screen identifies HNRNPL as a prostate cancer dependency regulating RNA splicing. (PMID: 28611215) Fei T … Brown M (Proceedings of the National Academy of Sciences of the United States of America 2017) 3
  4. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3
  5. A High-Density Map for Navigating the Human Polycomb Complexome. (PMID: 27705803) Hauri S … Beisel C (Cell reports 2016) 3

ExternalLinks

View latest publications for SAMD13 gene in Mastermind

Products for SAMD13 Gene

Sources for SAMD13 Gene