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Aliases for SNRPD3 Gene

Aliases for SNRPD3 Gene

  • Small Nuclear Ribonucleoprotein D3 Polypeptide 18kDa 2 3
  • SnRNP Core Protein D3 3 4
  • Sm-D3 3 4
  • Small Nuclear Ribonucleoprotein D3 Polypeptide (18kD) 2
  • Small Nuclear Ribonucleoprotein Sm D3 3
  • SMD3 3

External Ids for SNRPD3 Gene

Previous GeneCards Identifiers for SNRPD3 Gene

  • GC22P021648
  • GC22P023275
  • GC22P023276
  • GC22P024951
  • GC22P007901

Summaries for SNRPD3 Gene

Entrez Gene Summary for SNRPD3 Gene

  • This gene encodes a core component of the spliceosome, which is a nuclear ribonucleoprotein complex that functions in pre-mRNA splicing. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jul 2013]

GeneCards Summary for SNRPD3 Gene

SNRPD3 (Small Nuclear Ribonucleoprotein D3 Polypeptide 18kDa) is a Protein Coding gene. Among its related pathways are Gene Expression and Spliceosome. GO annotations related to this gene include enzyme binding and histone pre-mRNA DCP binding.

UniProtKB/Swiss-Prot for SNRPD3 Gene

  • Core component of the spliceosomal U1, U2, U4 and U5 small nuclear ribonucleoproteins (snRNPs), the building blocks of the spliceosome. Thereby, plays an important role in the splicing of cellular pre-mRNAs. Most spliceosomal snRNPs contain a common set of Sm proteins SNRPB, SNRPD1, SNRPD2, SNRPD3, SNRPE, SNRPF and SNRPG that assemble in an heptameric protein ring on the Sm site of the small nuclear RNA to form the core snRNP. As part of the U7 snRNP it is involved in histone 3-end processing.

Gene Wiki entry for SNRPD3 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SNRPD3 Gene

Genomics for SNRPD3 Gene

Regulatory Elements for SNRPD3 Gene

Transcription factor binding sites by QIAGEN in the SNRPD3 gene promoter:

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for SNRPD3 Gene

Start:
24,555,503 bp from pter
End:
24,609,980 bp from pter
Size:
54,478 bases
Orientation:
Plus strand

Genomic View for SNRPD3 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SNRPD3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SNRPD3 Gene

Proteins for SNRPD3 Gene

  • Protein details for SNRPD3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P62318-SMD3_HUMAN
    Recommended name:
    Small nuclear ribonucleoprotein Sm D3
    Protein Accession:
    P62318
    Secondary Accessions:
    • B4DJP7
    • B5BU13
    • P43331

    Protein attributes for SNRPD3 Gene

    Size:
    126 amino acids
    Molecular mass:
    13916 Da
    Quaternary structure:
    • U1 snRNP is for instance composed of the 7 core Sm proteins SNRPB, SNRPD1, SNRPD2, SNRPD3, SNRPE, SNRPF and SNRPG that assemble in an heptameric protein ring on the Sm site of the small nuclear RNA to form the core snRNP, and at least three U1 snRNP-specific proteins SNRNP70/U1-70K, SNRPA/U1-A and SNRPC/U1-C. Component of the U11/U12 snRNPs that are part of the U12-type spliceosome. Component of the U7 snRNP complex, or U7 Sm protein core complex, at least composed of LSM10, LSM11, SNRPB, SNRPD3, SNRPE, SNRPF, SNRPG and U7 snRNA. Part of the SMN-Sm complex that contains SMN1, GEMIN2/SIP1, DDX20/GEMIN3, GEMIN4, GEMIN5, GEMIN6, GEMIN7, GEMIN8, STRAP/UNRIP and the Sm proteins SNRPB, SNRPD1, SNRPD2, SNRPD3, SNRPE, SNRPF and SNRPG; catalyzes core snRNPs assembly. Forms a 6S pICln-Sm complex composed of CLNS1A/pICln, SNRPD1, SNRPD2, SNRPE, SNRPF and SNRPG; ring-like structure where CLNS1A/pICln mimics additional Sm proteins and which is unable to assemble into the core snRNP.
    Miscellaneous:
    • In the autoimmune disease systemic lupus erythematosus, antinuclear antibodies are developed with Sm specificity

    Three dimensional structures from OCA and Proteopedia for SNRPD3 Gene

    Alternative splice isoforms for SNRPD3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SNRPD3 Gene

Proteomics data for SNRPD3 Gene at MOPED

Post-translational modifications for SNRPD3 Gene

  • Methylated on arginine residues by PRMT5 and PRMT7; probable asymmetric dimethylation which is required for assembly and biogenesis of snRNPs.
  • Ubiquitination at Lys8 and Lys78
  • Modification sites at PhosphoSitePlus

Other Protein References for SNRPD3 Gene

ENSEMBL proteins:
Reactome Protein details:
REFSEQ proteins:

No data available for DME Specific Peptides for SNRPD3 Gene

Domains for SNRPD3 Gene

Protein Domains for SNRPD3 Gene

Suggested Antigen Peptide Sequences for SNRPD3 Gene

Graphical View of Domain Structure for InterPro Entry

P62318

UniProtKB/Swiss-Prot:

SMD3_HUMAN :
  • P62318
Family:
  • Belongs to the snRNP core protein family.
genes like me logo Genes that share domains with SNRPD3: view

No data available for Gene Families for SNRPD3 Gene

Function for SNRPD3 Gene

Molecular function for SNRPD3 Gene

UniProtKB/Swiss-Prot Function:
Core component of the spliceosomal U1, U2, U4 and U5 small nuclear ribonucleoproteins (snRNPs), the building blocks of the spliceosome. Thereby, plays an important role in the splicing of cellular pre-mRNAs. Most spliceosomal snRNPs contain a common set of Sm proteins SNRPB, SNRPD1, SNRPD2, SNRPD3, SNRPE, SNRPF and SNRPG that assemble in an heptameric protein ring on the Sm site of the small nuclear RNA to form the core snRNP. As part of the U7 snRNP it is involved in histone 3-end processing.

Gene Ontology (GO) - Molecular Function for SNRPD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 11714716
GO:0019899 enzyme binding IPI 17709427
GO:0044822 poly(A) RNA binding IDA 22681889
GO:0071208 histone pre-mRNA DCP binding ISS --
genes like me logo Genes that share ontologies with SNRPD3: view
genes like me logo Genes that share phenotypes with SNRPD3: view

Animal Model Products

CRISPR Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for SNRPD3 Gene

Localization for SNRPD3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SNRPD3 Gene

Cytoplasm, cytosol. Nucleus. Note=SMN-mediated assembly into core snRNPs occurs in the cytosol before SMN-mediated transport to the nucleus to be included in spliceosomes.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SNRPD3 Gene COMPARTMENTS Subcellular localization image for SNRPD3 gene
Compartment Confidence
nucleus 5
cytosol 4

Gene Ontology (GO) - Cellular Components for SNRPD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus --
GO:0005654 nucleoplasm TAS --
GO:0005681 spliceosomal complex TAS 7527560
GO:0005683 U7 snRNP IDA 11574479
GO:0005685 U1 snRNP IDA 21113136
genes like me logo Genes that share ontologies with SNRPD3: view

Pathways for SNRPD3 Gene

genes like me logo Genes that share pathways with SNRPD3: view

Gene Ontology (GO) - Biological Process for SNRPD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000387 spliceosomal snRNP assembly TAS --
GO:0000398 mRNA splicing, via spliceosome TAS --
GO:0006366 transcription from RNA polymerase II promoter TAS --
GO:0006369 termination of RNA polymerase II transcription TAS --
GO:0006479 protein methylation IDA 18495660
genes like me logo Genes that share ontologies with SNRPD3: view

Transcripts for SNRPD3 Gene

Unigene Clusters for SNRPD3 Gene

Small nuclear ribonucleoprotein D3 polypeptide 18kDa:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for SNRPD3

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SNRPD3 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3 ^ 4
SP1:
SP2: -
SP3: -

Relevant External Links for SNRPD3 Gene

GeneLoc Exon Structure for
SNRPD3
ECgene alternative splicing isoforms for
SNRPD3

Expression for SNRPD3 Gene

mRNA expression in normal human tissues for SNRPD3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues for SNRPD3 Gene

This gene is overexpressed in Nasal epithelium (7.0).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for SNRPD3 Gene

SOURCE GeneReport for Unigene cluster for SNRPD3 Gene Hs.356549

genes like me logo Genes that share expressions with SNRPD3: view

Expression partners for SNRPD3 Gene

In Situ Assay Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for SNRPD3 Gene

Orthologs for SNRPD3 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for SNRPD3 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia SNRPD3 35
  • 87.2 (n)
  • 99.2 (a)
SNRPD3 36
  • 100 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SNRPD3 35
  • 91.8 (n)
  • 100 (a)
-- 36
  • 100 (a)
OneToMany
-- 36
  • 99 (a)
OneToMany
mouse
(Mus musculus)
Mammalia Snrpd3 35
  • 91.8 (n)
  • 100 (a)
Snrpd3 16
Snrpd3 36
  • 100 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia SNRPD3 35
  • 99.74 (n)
  • 100 (a)
SNRPD3 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Snrpd3 35
  • 92.59 (n)
  • 100 (a)
oppossum
(Monodelphis domestica)
Mammalia SNRPD3 36
  • 100 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SNRPD3 36
  • 100 (a)
OneToOne
chicken
(Gallus gallus)
Aves SNRPD3 35
  • 85.71 (n)
  • 100 (a)
SNRPD3 36
  • 100 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SNRPD3 36
  • 91 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia snrpd3 35
  • 84.13 (n)
  • 100 (a)
Str.17086 35
zebrafish
(Danio rerio)
Actinopterygii snrpd3 35
  • 76.72 (n)
  • 91.27 (a)
wufa18f04 35
snrpd3 36
  • 94 (a)
OneToMany
snrpd3l 36
  • 96 (a)
OneToMany
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.8795 35
fruit fly
(Drosophila melanogaster)
Insecta SmD3 37
  • 91 (a)
SmD3 35
  • 70.72 (n)
  • 83.18 (a)
SmD3 36
  • 64 (a)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP012380 35
  • 72.96 (n)
  • 83.02 (a)
worm
(Caenorhabditis elegans)
Secernentea snr-1 35
  • 64.13 (n)
  • 69.57 (a)
snr-1 36
  • 53 (a)
OneToOne
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AGL157C 35
  • 62.6 (n)
  • 54.88 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SMD3 36
  • 46 (a)
OneToOne
SMD3 38
thale cress
(Arabidopsis thaliana)
eudicotyledons AT1G20580 35
  • 60.07 (n)
  • 58.42 (a)
soybean
(Glycine max)
eudicotyledons Gma.5905 35
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.5543 35
barley
(Hordeum vulgare)
Liliopsida Hv.2388 35
rice
(Oryza sativa)
Liliopsida Os03g0240800 35
  • 63.27 (n)
  • 59.26 (a)
bread mold
(Neurospora crassa)
Ascomycetes NCU03625 35
  • 59.88 (n)
  • 60.19 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes smd3 35
  • 64.96 (n)
  • 74.36 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.6100 36
  • 71 (a)
OneToOne
Species with no ortholog for SNRPD3:
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • 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)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for SNRPD3 Gene

ENSEMBL:
Gene Tree for SNRPD3 (if available)
TreeFam:
Gene Tree for SNRPD3 (if available)

Paralogs for SNRPD3 Gene

Selected SIMAP similar genes for SNRPD3 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with SNRPD3: view

No data available for Paralogs for SNRPD3 Gene

Variants for SNRPD3 Gene

Sequence variations from dbSNP and Humsavar for SNRPD3 Gene

SNP ID Clin Chr 22 pos Sequence Context AA Info Type MAF
rs4597 -- 24,568,160(+) GCTGC(A/C/T)ATTCT synonymous-codon, reference, intron-variant
rs9830 -- 24,574,518(-) AAACA(C/T)GTTCA utr-variant-3-prime, nc-transcript-variant
rs713666 -- 24,559,641(+) GTGAC(C/T)TGGGG intron-variant
rs713672 -- 24,559,732(+) AACCA(C/T)GCCTG intron-variant
rs762286 -- 24,574,139(+) TTTGA(A/G)TAATA utr-variant-3-prime, nc-transcript-variant

Structural Variations from Database of Genomic Variants (DGV) for SNRPD3 Gene

Variant ID Type Subtype PubMed ID
nsv7350 OTHER Inversion 18451855
esv2724041 CNV Deletion 23290073
nsv526567 CNV Gain 19592680
nsv914599 CNV Gain 21882294
nsv914629 CNV Gain 21882294
esv2724068 CNV Deletion 23290073
nsv9884 CNV Gain+Loss 18304495

Relevant External Links for SNRPD3 Gene

HapMap Linkage Disequilibrium report
SNRPD3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SNRPD3 Gene

Disorders for SNRPD3 Gene

No disorders were found for SNRPD3 Gene.

No data available for MalaCards , OMIM , UniProtKB/Swiss-Prot , University of Copenhagen DISEASES , Novoseek inferred disease relationships , Genatlas and External Links for SNRPD3 Gene

Publications for SNRPD3 Gene

  1. cDNA cloning of the Sm proteins D2 and D3 from human small nuclear ribonucleoproteins: evidence for a direct D1-D2 interaction. (PMID: 7527560) Lehmeier T. … Luehrmann R. (Proc. Natl. Acad. Sci. U.S.A. 1994) 2 3 4
  2. The methylosome, a 20S complex containing JBP1 and pICln, produces dimethylarginine-modified Sm proteins. (PMID: 11713266) Friesen W.J. … Dreyfuss G. (Mol. Cell. Biol. 2001) 3 23
  3. Evidence for three distinct D proteins, which react differentially with anti-Sm autoantibodies, in the cores of the major snRNPs U1, U2, U4/U6 and U5. (PMID: 1701240) Lehmeier T. … LA1hrmann R. (Nucleic Acids Res. 1990) 2 3
  4. Methylation of Sm proteins by a complex containing PRMT5 and the putative U snRNP assembly factor pICln. (PMID: 11747828) Meister G. … Fischer U. (Curr. Biol. 2001) 3 4
  5. Crystal structures of two Sm protein complexes and their implications for the assembly of the spliceosomal snRNPs. (PMID: 10025403) Kambach C. … Nagai K. (Cell 1999) 3 4

Products for SNRPD3 Gene

Sources for SNRPD3 Gene

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