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Aliases for SAMD4B Gene

Aliases for SAMD4B Gene

  • Sterile Alpha Motif Domain Containing 4B 2 3 5
  • Sterile Alpha Motif Domain-Containing Protein 4B 3 4
  • SAM Domain-Containing Protein 4B 3 4
  • Smaug 2 3 4
  • Smaug2 3 4
  • Smaug Homolog B (Drosophila) 2
  • Protein Smaug Homolog 2 3
  • Smaug Homolog B 3
  • HSmaug2 4
  • SMGB 3

External Ids for SAMD4B Gene

Previous GeneCards Identifiers for SAMD4B Gene

  • GC19P044525
  • GC19P039833
  • GC19P036279

Summaries for SAMD4B Gene

GeneCards Summary for SAMD4B Gene

SAMD4B (Sterile Alpha Motif Domain Containing 4B) is a Protein Coding gene. GO annotations related to this gene include poly(A) RNA binding. An important paralog of this gene is SAMD4A.

UniProtKB/Swiss-Prot for SAMD4B Gene

  • Has transcriptional repressor activity. Overexpression inhibits the transcriptional activities of AP-1, p53/TP53 and CDKN1A.

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SAMD4B Gene

Genomics for SAMD4B Gene

Regulatory Elements for SAMD4B Gene

Enhancers for SAMD4B 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
GH19G039397 2 FANTOM5 ENCODE dbSUPER 5.3 +64.7 64679 20.0 MLX CREB3L1 AGO1 ZFP64 FEZF1 DMAP1 YBX1 YY1 SLC30A9 ZNF416 ENSG00000205041 EID2B ZFP36 FBL RPS16 SUPT5H ENSG00000269069 RN7SL566P ENSG00000269688 MED29
GH19G039389 1.4 ENCODE dbSUPER 6.4 +48.4 48390 3.4 CREB3L1 AGO1 ZFP64 FEZF1 DMAP1 YY1 ZNF143 ZNF263 SP3 NFYC EID2B ENSG00000205041 PSMC4 RPS16 MED29 ENSG00000267892 SUPT5H EID2 PAK4 FBL
GH19G039334 1.5 FANTOM5 ENCODE dbSUPER 5.5 -6.0 -5975 4.3 HDGF PKNOX1 ARNT TCF12 ZNF121 ZNF766 GLIS2 ZNF143 ZHX2 TBX21 GMFG SAMD4B ENSG00000205041 CLC RINL GC19P039341 ENSG00000268262
GH19G039356 1.3 ENCODE dbSUPER 6.2 +14.2 14239 1.2 HDGF FOXA2 ARNT AGO1 SIN3A DMAP1 FEZF1 YY1 SLC30A9 DEK EID2B ENSG00000205041 PAK4 SAMD4B RPS16 GC19P039349 RN7SL566P
GH19G039371 1.6 FANTOM5 Ensembl ENCODE dbSUPER 4.7 +30.4 30352 2.1 HDAC1 BACH1 CEBPG TCF12 ZNF121 ZNF316 ZNF366 NR2F6 NFE2 NFE2L2 RPS16 SUPT5H TIMM50 EID2B SAMD4B ENSG00000205041 RN7SL566P GC19P039385
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SAMD4B on UCSC Golden Path with GeneCards custom track

Promoters for SAMD4B Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000109413 -96 2201 CREB3L1 AGO1 DMAP1 FEZF1 YY1 ZNF143 ZNF263 SP3 NFYC MEF2D

Genomic Location for SAMD4B Gene

Chromosome:
19
Start:
39,342,396 bp from pter
End:
39,390,760 bp from pter
Size:
48,365 bases
Orientation:
Plus strand

Genomic View for SAMD4B Gene

Genes around SAMD4B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SAMD4B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SAMD4B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SAMD4B Gene

Proteins for SAMD4B Gene

  • Protein details for SAMD4B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q5PRF9-SMAG2_HUMAN
    Recommended name:
    Protein Smaug homolog 2
    Protein Accession:
    Q5PRF9
    Secondary Accessions:
    • A5Z0M6
    • Q6P194

    Protein attributes for SAMD4B Gene

    Size:
    694 amino acids
    Molecular mass:
    75483 Da
    Quaternary structure:
    No Data Available

neXtProt entry for SAMD4B Gene

Post-translational modifications for SAMD4B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for SAMD4B Gene

Domains & Families for SAMD4B Gene

Gene Families for SAMD4B Gene

Protein Domains for SAMD4B Gene

Graphical View of Domain Structure for InterPro Entry

Q5PRF9

UniProtKB/Swiss-Prot:

SMAG2_HUMAN :
  • Belongs to the SMAUG family.
Family:
  • Belongs to the SMAUG family.
genes like me logo Genes that share domains with SAMD4B: view

Function for SAMD4B Gene

Molecular function for SAMD4B Gene

UniProtKB/Swiss-Prot Function:
Has transcriptional repressor activity. Overexpression inhibits the transcriptional activities of AP-1, p53/TP53 and CDKN1A.

Gene Ontology (GO) - Molecular Function for SAMD4B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IDA,IEA 22681889
GO:0003729 mRNA binding IBA --
GO:0030371 translation repressor activity IBA --
genes like me logo Genes that share ontologies with SAMD4B: view
genes like me logo Genes that share phenotypes with SAMD4B: view

Animal Model Products

CRISPR Products

miRNA for SAMD4B Gene

miRTarBase miRNAs that target SAMD4B

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SAMD4B Gene

Localization for SAMD4B Gene

Subcellular locations from UniProtKB/Swiss-Prot for SAMD4B Gene

Cytoplasm. Nucleus.

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 SAMD4B gene
Compartment Confidence
cytosol 5
nucleus 4
peroxisome 1

Gene Ontology (GO) - Cellular Components for SAMD4B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000932 P-body IBA --
GO:0005634 nucleus IEA --
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol IDA --
genes like me logo Genes that share ontologies with SAMD4B: view

Pathways & Interactions for SAMD4B Gene

SuperPathways for SAMD4B Gene

No Data Available

Gene Ontology (GO) - Biological Process for SAMD4B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000289 nuclear-transcribed mRNA poly(A) tail shortening IBA --
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0017148 negative regulation of translation IBA --
GO:0043488 regulation of mRNA stability IBA --
genes like me logo Genes that share ontologies with SAMD4B: view

No data available for Pathways by source and SIGNOR curated interactions for SAMD4B Gene

Drugs & Compounds for SAMD4B Gene

No Compound Related Data Available

Transcripts for SAMD4B Gene

Unigene Clusters for SAMD4B Gene

Sterile alpha motif domain containing 4B:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for SAMD4B Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11a · 11b ^ 12 ^ 13 ^ 14a · 14b
SP1: -
SP2: - -
SP3:
SP4: -

Relevant External Links for SAMD4B Gene

GeneLoc Exon Structure for
SAMD4B
ECgene alternative splicing isoforms for
SAMD4B

Expression for SAMD4B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SAMD4B Gene

Protein differential expression in normal tissues from HIPED for SAMD4B Gene

This gene is overexpressed in Breast (16.8), Lung (14.8), and Bone marrow stromal cell (10.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SAMD4B Gene



Protein tissue co-expression partners for SAMD4B Gene

NURSA nuclear receptor signaling pathways regulating expression of SAMD4B Gene:

SAMD4B

SOURCE GeneReport for Unigene cluster for SAMD4B Gene:

Hs.707137

mRNA Expression by UniProt/SwissProt for SAMD4B Gene:

Q5PRF9-SMAG2_HUMAN
Tissue specificity: Widely expressed in embryonic and adult tissues.

Evidence on tissue expression from TISSUES for SAMD4B Gene

  • Liver(4.4)
  • Heart(4.3)
  • Lung(4)
  • Nervous system(3.9)
  • Pancreas(3.7)
  • Kidney(2.9)
  • Eye(2.7)
  • Intestine(2.3)
  • Skin(2.3)
  • Stomach(2.2)
  • Muscle(2)
  • Thyroid gland(2)
genes like me logo Genes that share expression patterns with SAMD4B: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for SAMD4B Gene

Orthologs for SAMD4B Gene

This gene was present in the common ancestor of animals.

Orthologs for SAMD4B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SAMD4B 34 35
  • 99.63 (n)
dog
(Canis familiaris)
Mammalia SAMD4B 34 35
  • 94.43 (n)
cow
(Bos Taurus)
Mammalia SAMD4B 34 35
  • 93.32 (n)
mouse
(Mus musculus)
Mammalia Samd4b 34 16 35
  • 92.92 (n)
rat
(Rattus norvegicus)
Mammalia Samd4b 34
  • 92.82 (n)
oppossum
(Monodelphis domestica)
Mammalia SAMD4B 35
  • 91 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 50 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia SAMD4B 35
  • 81 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia samd4b 34
  • 69.71 (n)
zebrafish
(Danio rerio)
Actinopterygii samd4b 34
  • 71.88 (n)
fruit fly
(Drosophila melanogaster)
Insecta smg 35
  • 12 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea ZC190.4 35
  • 16 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.7136 35
  • 49 (a)
OneToMany
Species where no ortholog for SAMD4B 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)
  • 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)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • 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)

Evolution for SAMD4B Gene

ENSEMBL:
Gene Tree for SAMD4B (if available)
TreeFam:
Gene Tree for SAMD4B (if available)

Paralogs for SAMD4B Gene

Paralogs for SAMD4B Gene

genes like me logo Genes that share paralogs with SAMD4B: view

Variants for SAMD4B Gene

Sequence variations from dbSNP and Humsavar for SAMD4B Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type
rs1000004715 -- 39,387,518(+) CAGGT(C/T)ACTCA intron-variant
rs1000143167 -- 39,352,860(+) TTGGT(C/T)GTTTT intron-variant, upstream-variant-2KB
rs1000161518 -- 39,351,359(+) GACCT(C/T)TTCAA intron-variant, utr-variant-5-prime
rs1000213780 -- 39,375,509(+) GGTAG(G/T)CAGTT intron-variant
rs1000288087 -- 39,368,780(+) TCTCA(A/G)AGCAA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SAMD4B Gene

Variant ID Type Subtype PubMed ID
dgv202n21 CNV loss 19592680
esv25791 CNV gain 19812545
esv3583388 CNV loss 25503493
nsv1126522 CNV deletion 24896259
nsv2480 CNV insertion 18451855
nsv833830 CNV loss 17160897

Variation tolerance for SAMD4B Gene

Residual Variation Intolerance Score: 4.71% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.71; 32.49% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SAMD4B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SAMD4B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SAMD4B Gene

Disorders for SAMD4B Gene

Relevant External Links for SAMD4B

Genetic Association Database (GAD)
SAMD4B
Human Genome Epidemiology (HuGE) Navigator
SAMD4B
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SAMD4B

No disorders were found for SAMD4B Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SAMD4B Gene

Publications for SAMD4B Gene

  1. Mammalian Smaug is a translational repressor that forms cytoplasmic foci similar to stress granules. (PMID: 16221671) Baez M.V. … Boccaccio G.L. (J. Biol. Chem. 2005) 2 3 4 64
  2. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PMID: 20628086) Bailey S.D. … Anand S. (Diabetes Care 2010) 3 46 64
  3. SAMD4B, a novel SAM-containing protein, inhibits AP-1-, p53- and p21- mediated transcriptional activity. (PMID: 20510020) Luo N. … Wu X. (BMB Rep. 2010) 3 4 64
  4. A probability-based approach for high-throughput protein phosphorylation analysis and site localization. (PMID: 16964243) Beausoleil S.A. … Gygi S.P. (Nat. Biotechnol. 2006) 3 4 64
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64

Products for SAMD4B Gene

Sources for SAMD4B Gene

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