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Aliases for SNRPD3 Gene

Aliases for SNRPD3 Gene

  • Small Nuclear Ribonucleoprotein D3 Polypeptide 2 3 5
  • 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
  • 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) is a Protein Coding gene. Diseases associated with SNRPD3 include lupus erythematosus and systemic lupus erythematosus. Among its related pathways are Gene Expression and Regulation of Glucokinase by Glucokinase Regulatory Protein. GO annotations related to this gene include poly(A) RNA 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

Promoters for SNRPD3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around SNRPD3 on UCSC Golden Path with GeneCards custom track

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

Genomic Location for SNRPD3 Gene

Chromosome:
22
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

Genes around SNRPD3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SNRPD3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
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.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SNRPD3 Gene

No data available for DME Specific Peptides for SNRPD3 Gene

Domains & Families 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 :
  • Belongs to the snRNP core protein family.
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:0030620 U2 snRNA binding IPI --
GO:0071209 U7 snRNA binding IPI 18082603
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

miRNA for SNRPD3 Gene

miRTarBase miRNAs that target SNRPD3

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets 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
cytosol 5
extracellular 5
nucleus 5

Gene Ontology (GO) - Cellular Components for SNRPD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005681 spliceosomal complex TAS 7527560
GO:0005685 U1 snRNP IDA 21113136
GO:0005686 U2 snRNP IBA --
GO:0005689 U12-type spliceosomal complex IDA 15146077
GO:0005737 cytoplasm IDA --
genes like me logo Genes that share ontologies with SNRPD3: view

Pathways & Interactions for SNRPD3 Gene

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

Pathways by source for SNRPD3 Gene

Gene Ontology (GO) - Biological Process for SNRPD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000245 spliceosomal complex assembly IBA --
GO:0006366 transcription from RNA polymerase II promoter TAS --
genes like me logo Genes that share ontologies with SNRPD3: view

No data available for SIGNOR curated interactions for SNRPD3 Gene

Drugs & Compounds for SNRPD3 Gene

No Compound Related Data Available

Transcripts for SNRPD3 Gene

Unigene Clusters for SNRPD3 Gene

Small nuclear ribonucleoprotein D3 polypeptide 18kDa:
Representative Sequences:

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

Protein differential expression in normal tissues from HIPED for SNRPD3 Gene

This gene is overexpressed in Nasal epithelium (7.0).

Integrated Proteomics: protein expression in normal tissues and cell lines 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 expression patterns with SNRPD3: view

Protein tissue co-expression partners for SNRPD3 Gene

- Elite partner

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , 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
chimpanzee
(Pan troglodytes)
Mammalia SNRPD3 36
  • 100 (a)
OneToOne
SNRPD3 35
  • 99.74 (n)
  • 100 (a)
cow
(Bos Taurus)
Mammalia SNRPD3 35
  • 87.2 (n)
  • 99.2 (a)
SNRPD3 36
  • 100 (a)
OneToOne
dog
(Canis familiaris)
Mammalia -- 36
  • 100 (a)
OneToMany
-- 36
  • 99 (a)
OneToMany
SNRPD3 35
  • 91.8 (n)
  • 100 (a)
mouse
(Mus musculus)
Mammalia Snrpd3 16
Snrpd3 35
  • 91.8 (n)
  • 100 (a)
Snrpd3 36
  • 100 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SNRPD3 36
  • 100 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SNRPD3 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Snrpd3 35
  • 92.59 (n)
  • 100 (a)
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
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.8795 35
zebrafish
(Danio rerio)
Actinopterygii snrpd3 36
  • 94 (a)
OneToMany
snrpd3l 36
  • 96 (a)
OneToMany
snrpd3 35
  • 76.72 (n)
  • 91.27 (a)
wufa18f04 35
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP012380 35
  • 72.96 (n)
  • 83.02 (a)
fruit fly
(Drosophila melanogaster)
Insecta SmD3 37
  • 91 (a)
SmD3 35
  • 70.72 (n)
  • 83.18 (a)
SmD3 36
  • 64 (a)
OneToOne
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
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.5543 35
soybean
(Glycine max)
eudicotyledons Gma.5905 35
thale cress
(Arabidopsis thaliana)
eudicotyledons AT1G20580 35
  • 60.07 (n)
  • 58.42 (a)
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

(2) 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
rs4597 -- 24,568,160(+) GCTGC(A/C/T)ATTCT intron-variant, reference, synonymous-codon
rs713666 -- 24,559,641(+) GTGAC(C/T)TGGGG intron-variant
rs1042654 -- 24,571,982(+) ATTTT(C/T)TAAGT nc-transcript-variant, utr-variant-3-prime
rs1137754 -- 24,572,508(+) atgta(A/G)tccca nc-transcript-variant, utr-variant-3-prime
rs1137755 -- 24,572,516(+) ccagc(A/G)ctttg nc-transcript-variant, utr-variant-3-prime

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

Variation tolerance for SNRPD3 Gene

Residual Variation Intolerance Score: 49% of all genes are more intolerant (likely to be disease-causing)

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

MalaCards: The human disease database

(3) MalaCards diseases for SNRPD3 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
lupus erythematosus
  • lupus
systemic lupus erythematosus
  • lupus nephritis
connective tissue disease
  • connective tissue disorder
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for SNRPD3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SNRPD3
genes like me logo Genes that share disorders with SNRPD3: view

No data available for UniProtKB/Swiss-Prot and Genatlas 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 67
  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. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3
  5. Panorama of ancient metazoan macromolecular complexes. (PMID: 26344197) Wan C. … Emili A. (Nature 2015) 3

Products for SNRPD3 Gene

Sources for SNRPD3 Gene

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