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Aliases for LSM3 Gene

Aliases for LSM3 Gene

  • LSM3 Homolog, U6 Small Nuclear RNA And MRNA Degradation Associated 2 3 5
  • LSM3 Homolog, U6 Small Nuclear RNA Associated (S. Cerevisiae) 2
  • LSM3 U6 Small Nuclear RNA And MRNA Degradation Associated 3
  • LSM3 Homolog, U6 Small Nuclear RNA Associated 3
  • YLR438C 3
  • SMX4 3
  • USS2 3

External Ids for LSM3 Gene

Previous GeneCards Identifiers for LSM3 Gene

  • GC03P014149
  • GC03P014195
  • GC03P014155
  • GC03P014219

Summaries for LSM3 Gene

Entrez Gene Summary for LSM3 Gene

  • Sm-like proteins were identified in a variety of organisms based on sequence homology with the Sm protein family (see SNRPD2; MIM 601061). Sm-like proteins contain the Sm sequence motif, which consists of 2 regions separated by a linker of variable length that folds as a loop. The Sm-like proteins are thought to form a stable heteromer present in tri-snRNP particles, which are important for pre-mRNA splicing.[supplied by OMIM, Apr 2004]

GeneCards Summary for LSM3 Gene

LSM3 (LSM3 Homolog, U6 Small Nuclear RNA And MRNA Degradation Associated) is a Protein Coding gene. Among its related pathways are mRNA Splicing - Major Pathway and Deadenylation-dependent mRNA decay. GO annotations related to this gene include poly(A) RNA binding.

UniProtKB/Swiss-Prot for LSM3 Gene

  • Binds specifically to the 3-terminal U-tract of U6 snRNA.

Gene Wiki entry for LSM3 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LSM3 Gene

Genomics for LSM3 Gene

Regulatory Elements for LSM3 Gene

Enhancers for LSM3 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around LSM3 on UCSC Golden Path with GeneCards custom track

Promoters for LSM3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around LSM3 on UCSC Golden Path with GeneCards custom track

Genomic Location for LSM3 Gene

Chromosome:
3
Start:
14,178,358 bp from pter
End:
14,201,119 bp from pter
Size:
22,762 bases
Orientation:
Plus strand

Genomic View for LSM3 Gene

Genes around LSM3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LSM3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LSM3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LSM3 Gene

Proteins for LSM3 Gene

  • Protein details for LSM3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P62310-LSM3_HUMAN
    Recommended name:
    U6 snRNA-associated Sm-like protein LSm3
    Protein Accession:
    P62310
    Secondary Accessions:
    • Q6IAH0
    • Q9Y4Z1

    Protein attributes for LSM3 Gene

    Size:
    102 amino acids
    Molecular mass:
    11845 Da
    Quaternary structure:
    • LSm subunits form a heteromer with a doughnut shape. Identified in the spliceosome C complex.

neXtProt entry for LSM3 Gene

Proteomics data for LSM3 Gene at MOPED

Post-translational modifications for LSM3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for LSM3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for LSM3 Gene

Domains & Families for LSM3 Gene

Protein Domains for LSM3 Gene

Suggested Antigen Peptide Sequences for LSM3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P62310

UniProtKB/Swiss-Prot:

LSM3_HUMAN :
  • Belongs to the snRNP Sm proteins family.
Family:
  • Belongs to the snRNP Sm proteins family.
genes like me logo Genes that share domains with LSM3: view

No data available for Gene Families for LSM3 Gene

Function for LSM3 Gene

Molecular function for LSM3 Gene

UniProtKB/Swiss-Prot Function:
Binds specifically to the 3-terminal U-tract of U6 snRNA.

Gene Ontology (GO) - Molecular Function for LSM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0044822 poly(A) RNA binding IDA 22658674
genes like me logo Genes that share ontologies with LSM3: view
genes like me logo Genes that share phenotypes with LSM3: view

Animal Model Products

miRNA for LSM3 Gene

miRTarBase miRNAs that target LSM3

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LSM3 Gene

Localization for LSM3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LSM3 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for LSM3 Gene COMPARTMENTS Subcellular localization image for LSM3 gene
Compartment Confidence
cytosol 5
nucleus 5
cytoskeleton 2
extracellular 1

Gene Ontology (GO) - Cellular Components for LSM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005688 U6 snRNP IBA --
GO:0005829 cytosol TAS --
GO:0046540 U4/U6 x U5 tri-snRNP complex IBA --
genes like me logo Genes that share ontologies with LSM3: view

Pathways & Interactions for LSM3 Gene

genes like me logo Genes that share pathways with LSM3: view

Pathways by source for LSM3 Gene

Gene Ontology (GO) - Biological Process for LSM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000398 mRNA splicing, via spliceosome IC,TAS --
genes like me logo Genes that share ontologies with LSM3: view

No data available for SIGNOR curated interactions for LSM3 Gene

Drugs & Compounds for LSM3 Gene

No Compound Related Data Available

Transcripts for LSM3 Gene

mRNA/cDNA for LSM3 Gene

(1) REFSEQ mRNAs :
(6) Additional mRNA sequences :
(270) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for LSM3 Gene

LSM3 homolog, U6 small nuclear RNA associated (S. cerevisiae):
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for LSM3 Gene

No ASD Table

Relevant External Links for LSM3 Gene

GeneLoc Exon Structure for
LSM3
ECgene alternative splicing isoforms for
LSM3

Expression for LSM3 Gene

mRNA expression in normal human tissues for LSM3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for LSM3 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (8.4) and Bone marrow stromal cell (7.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for LSM3 Gene



SOURCE GeneReport for Unigene cluster for LSM3 Gene Hs.111632

genes like me logo Genes that share expression patterns with LSM3: view

Protein tissue co-expression partners for LSM3 Gene

- Elite partner

Primer Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for LSM3 Gene

Orthologs for LSM3 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for LSM3 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia LSM3 35
  • 90.2 (n)
  • 100 (a)
LSM3 36
  • 100 (a)
OneToOne
dog
(Canis familiaris)
Mammalia LSM3 35
  • 94.44 (n)
  • 100 (a)
LSM3 36
  • 98 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Lsm3 35
  • 90.85 (n)
  • 100 (a)
Lsm3 16
Lsm3 36
  • 100 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia LSM3 35
  • 100 (n)
  • 100 (a)
LSM3 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Lsm3 35
  • 90.52 (n)
  • 100 (a)
oppossum
(Monodelphis domestica)
Mammalia LSM3 36
  • 99 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia LSM3 36
  • 99 (a)
OneToOne
chicken
(Gallus gallus)
Aves LSM3 35
  • 84.31 (n)
  • 99.02 (a)
lizard
(Anolis carolinensis)
Reptilia LSM3 36
  • 99 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lsm3 35
  • 80.39 (n)
  • 98.04 (a)
African clawed frog
(Xenopus laevis)
Amphibia Xl.6080 35
zebrafish
(Danio rerio)
Actinopterygii cldng 35
LOC100535720 35
  • 79.08 (n)
  • 97.06 (a)
CABZ01028296.1 36
  • 97 (a)
OneToOne
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.2463 35
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP013519 35
  • 70.1 (n)
  • 78.35 (a)
fruit fly
(Drosophila melanogaster)
Insecta LSm3 35
  • 66.34 (n)
  • 77.45 (a)
LSm3 36
  • 76 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea lsm-3 35
  • 62.75 (n)
  • 69.61 (a)
lsm-3 36
  • 70 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes LSM3 36
  • 39 (a)
OneToOne
LSM3 38
thale cress
(Arabidopsis thaliana)
eudicotyledons AT1G76860 35
  • 68.89 (n)
  • 80 (a)
soybean
(Glycine max)
eudicotyledons Gma.12513 35
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.956 35
rice
(Oryza sativa)
Liliopsida Os.8993 35
Os01g0866700 35
  • 69.63 (n)
  • 81.11 (a)
corn
(Zea mays)
Liliopsida Zm.3271 35
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.1658 35
sea squirt
(Ciona savignyi)
Ascidiacea CSA.644 36
  • 83 (a)
OneToOne
Species with no ortholog for LSM3:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • 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)
  • 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 LSM3 Gene

ENSEMBL:
Gene Tree for LSM3 (if available)
TreeFam:
Gene Tree for LSM3 (if available)

Paralogs for LSM3 Gene

(1) SIMAP similar genes for LSM3 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with LSM3: view

No data available for Paralogs for LSM3 Gene

Variants for LSM3 Gene

Sequence variations from dbSNP and Humsavar for LSM3 Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type
rs2445979 -- 14,192,960(-) tgcct(C/T)acaag intron-variant
rs4420841 -- 14,182,900(+) GGTTC(C/T)GCCTT intron-variant
rs2470354 -- 14,189,837(+) TTGCC(A/G)TTGCT intron-variant
rs2470457 -- 14,190,291(-) ATATG(A/G)AACCA intron-variant
rs2607738 -- 14,180,821(+) CTTGC(C/T)TTTTT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for LSM3 Gene

Variant ID Type Subtype PubMed ID
nsv876550 CNV Loss 21882294
esv34163 CNV Loss 18971310
esv2724945 CNV Deletion 23290073

Variation tolerance for LSM3 Gene

Residual Variation Intolerance Score: 36.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.20; 4.49% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LSM3 Gene

Human Gene Mutation Database (HGMD)
LSM3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LSM3 Gene

Disorders for LSM3 Gene

Relevant External Links for LSM3

Genetic Association Database (GAD)
LSM3
Human Genome Epidemiology (HuGE) Navigator
LSM3
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LSM3

No disorders were found for LSM3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LSM3 Gene

Publications for LSM3 Gene

  1. A doughnut-shaped heteromer of human Sm-like proteins binds to the 3'-end of U6 snRNA, thereby facilitating U4/U6 duplex formation in vitro. (PMID: 10523320) Achsel T. … Luehrmann R. (EMBO J. 1999) 2 3 4 67
  2. The human LSm1-7 proteins colocalize with the mRNA-degrading enzymes Dcp1/2 and Xrnl in distinct cytoplasmic foci. (PMID: 12515382) Ingelfinger D. … Achsel T. (RNA 2002) 2 3
  3. Sm and Sm-like proteins assemble in two related complexes of deep evolutionary origin. (PMID: 10369684) Salgado-Garrido J. … Seraphin B. (EMBO J. 1999) 2 3
  4. Panorama of ancient metazoan macromolecular complexes. (PMID: 26344197) Wan C. … Emili A. (Nature 2015) 3
  5. A human interactome in three quantitative dimensions organized by stoichiometries and abundances. (PMID: 26496610) Hein M.Y. … Mann M. (Cell 2015) 3

Products for LSM3 Gene

Sources for LSM3 Gene

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