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Aliases for LSM2 Gene

Aliases for LSM2 Gene

  • LSM2 Homolog, U6 Small Nuclear RNA And MRNA Degradation Associated 2 3
  • Small Nuclear Ribonuclear Protein D Homolog 3 4
  • SnRNP Core Sm-Like Protein Sm-X5 3 4
  • Protein G7b 3 4
  • C6orf28 3 4
  • G7B 3 4
  • LSM2 Homolog, U6 Small Nuclear RNA Associated (S. Cerevisiae) 2
  • LSM2 U6 Small Nuclear RNA And MRNA Degradation Associated 3
  • LSM2 Homolog, U6 Small Nuclear RNA Associated 3
  • Chromosome 6 Open Reading Frame 28 2
  • YBL026W 3
  • SnRNP 3

External Ids for LSM2 Gene

Previous HGNC Symbols for LSM2 Gene

  • C6orf28

Previous GeneCards Identifiers for LSM2 Gene

  • GC06M031819
  • GC06M031535
  • GC06M031869
  • GC06M031873
  • GC06M031765
  • GC06M031553

Summaries for LSM2 Gene

Entrez Gene Summary for LSM2 Gene

  • This gene encodes a member of the LSm family of RNA-binding proteins. LSm proteins form stable heteromers that bind specifically to the 3'-terminal oligo(U) tract of U6 snRNA and may play a role in pre-mRNA splicing by mediating U4/U6 snRNP formation. Pseudogenes of this gene are located on the short arm of chromosomes 6 and 19. [provided by RefSeq, Nov 2011]

GeneCards Summary for LSM2 Gene

LSM2 (LSM2 Homolog, U6 Small Nuclear RNA And MRNA Degradation Associated) is a Protein Coding gene. Diseases associated with LSM2 include spinal muscular atrophy. Among its related pathways are Translational Control and Gene Expression. GO annotations related to this gene include poly(A) RNA binding and Ral GTPase binding.

UniProtKB/Swiss-Prot for LSM2 Gene

  • Binds specifically to the 3-terminal U-tract of U6 snRNA. May be involved in pre-mRNA splicing

Gene Wiki entry for LSM2 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LSM2 Gene

Genomics for LSM2 Gene

Regulatory Elements for LSM2 Gene

Genomic Location for LSM2 Gene

Chromosome:
6
Start:
31,797,392 bp from pter
End:
31,806,984 bp from pter
Size:
9,593 bases
Orientation:
Minus strand

Genomic View for LSM2 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for LSM2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

Proteins for LSM2 Gene

  • Protein details for LSM2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y333-LSM2_HUMAN
    Recommended name:
    U6 snRNA-associated Sm-like protein LSm2
    Protein Accession:
    Q9Y333
    Secondary Accessions:
    • Q6FGG1

    Protein attributes for LSM2 Gene

    Size:
    95 amino acids
    Molecular mass:
    10835 Da
    Quaternary structure:
    • Identified in the spliceosome C complex. LSm subunits form a heteromer with a doughnut shape.

neXtProt entry for LSM2 Gene

Proteomics data for LSM2 Gene at MOPED

Post-translational modifications for LSM2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for LSM2 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

  • Cell Signaling Technology (CST) Antibodies for LSM2 (LSM2)

No data available for DME Specific Peptides for LSM2 Gene

Domains & Families for LSM2 Gene

Suggested Antigen Peptide Sequences for LSM2 Gene

Graphical View of Domain Structure for InterPro Entry

Q9Y333

UniProtKB/Swiss-Prot:

LSM2_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 LSM2: view

No data available for Gene Families for LSM2 Gene

Function for LSM2 Gene

Molecular function for LSM2 Gene

UniProtKB/Swiss-Prot Function:
Binds specifically to the 3-terminal U-tract of U6 snRNA. May be involved in pre-mRNA splicing

Gene Ontology (GO) - Molecular Function for LSM2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 14667819
GO:0017070 U6 snRNA binding NAS 10523320
GO:0017160 Ral GTPase binding IPI 24056301
GO:0019901 protein kinase binding IEA --
GO:0044822 poly(A) RNA binding IDA 22658674
genes like me logo Genes that share ontologies with LSM2: view
genes like me logo Genes that share phenotypes with LSM2: view

Animal Model Products

miRNA for LSM2 Gene

miRTarBase miRNAs that target LSM2

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for LSM2

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targets and HOMER Transcription for LSM2 Gene

Localization for LSM2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LSM2 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for LSM2 Gene COMPARTMENTS Subcellular localization image for LSM2 gene
Compartment Confidence
nucleus 2

Gene Ontology (GO) - Cellular Components for LSM2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000932 cytoplasmic mRNA processing body IBA --
GO:0005654 nucleoplasm TAS --
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 LSM2: view

Pathways & Interactions for LSM2 Gene

genes like me logo Genes that share pathways with LSM2: view

Pathways by source for LSM2 Gene

1 Cell Signaling Technology pathway for LSM2 Gene
1 BioSystems pathway for LSM2 Gene

Gene Ontology (GO) - Biological Process for LSM2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000288 nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay TAS --
GO:0000398 mRNA splicing, via spliceosome TAS --
GO:0006397 mRNA processing --
GO:0008380 RNA splicing TAS --
GO:0010467 gene expression TAS --
genes like me logo Genes that share ontologies with LSM2: view

No data available for SIGNOR curated interactions for LSM2 Gene

Drugs & Compounds for LSM2 Gene

(7) Drugs for LSM2 Gene - From: NovoSeek and PharmGKB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Carbamazepine Approved, Investigational Pharma Inhibitor of neuronal voltage-gated Na+ channels; anticonvulsant 115
Zinc Approved Pharma 1404
N-Ethylmaleimide Experimental Pharma 0
okadaic acid Experimental Pharma 0
ATP Pharma Activator 0

(3) Additional Compounds for LSM2 Gene - From: NovoSeek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
Actinomycin D
gtp
Partial agonist, Agonist
Lariat
genes like me logo Genes that share compounds with LSM2: view

Transcripts for LSM2 Gene

Unigene Clusters for LSM2 Gene

LSM2 homolog, U6 small nuclear RNA associated (S. cerevisiae):
Representative Sequences:

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for LSM2

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for LSM2 Gene

No ASD Table

Relevant External Links for LSM2 Gene

GeneLoc Exon Structure for
LSM2
ECgene alternative splicing isoforms for
LSM2

Expression for LSM2 Gene

mRNA expression in normal human tissues for LSM2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for LSM2 Gene

This gene is overexpressed in Tlymphocyte (10.1), Peripheral blood mononuclear cells (9.3), and Nasal epithelium (7.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for LSM2 Gene



SOURCE GeneReport for Unigene cluster for LSM2 Gene Hs.103106

genes like me logo Genes that share expression patterns with LSM2: view

Protein tissue co-expression partners for LSM2 Gene

- Elite partner

Primer Products

  • QuantiTect SYBR Green Assays in human,mouse,rat
  • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
  • QuantiFast Probe-based Assays in human,mouse,rat

In Situ Assay Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for LSM2 Gene

Orthologs for LSM2 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for LSM2 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia LSM2 35
  • 94.39 (n)
  • 100 (a)
LSM2 36
  • 100 (a)
OneToOne
dog
(Canis familiaris)
Mammalia LOC474849 35
  • 93.68 (n)
  • 100 (a)
mouse
(Mus musculus)
Mammalia Lsm2 35
  • 92.2 (n)
  • 100 (a)
Lsm2 16
Lsm2 36
  • 72 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia LSM2 35
  • 100 (n)
  • 100 (a)
LSM2 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Lsm2 35
  • 90.43 (n)
  • 100 (a)
oppossum
(Monodelphis domestica)
Mammalia LSM2 36
  • 98 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia LSM2 36
  • 100 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia LSM2 36
  • 90 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lsm2 35
  • 79.65 (n)
  • 98.95 (a)
Str.10738 35
zebrafish
(Danio rerio)
Actinopterygii smx5 35
  • 82.11 (n)
  • 98.95 (a)
smx5 36
  • 99 (a)
OneToOne
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.9612 35
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP005136 35
  • 76.92 (n)
  • 97.8 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG10418 35
  • 79.49 (n)
  • 95.6 (a)
CG10418 36
  • 92 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea gut-2 35
  • 69.15 (n)
  • 84.04 (a)
gut-2 36
  • 81 (a)
OneToOne
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AFR182C 35
  • 60.7 (n)
  • 61.05 (a)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0F09207g 35
  • 56.14 (n)
  • 57.89 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes LSM2 35
  • 58.6 (n)
  • 63.16 (a)
LSM2 36
  • 63 (a)
OneToOne
LSM2 38
thale cress
(Arabidopsis thaliana)
eudicotyledons AT1G03330 35
  • 67.41 (n)
  • 75.56 (a)
soybean
(Glycine max)
eudicotyledons Gma.2161 35
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.2643 35
barley
(Hordeum vulgare)
Liliopsida Hv.6066 35
rice
(Oryza sativa)
Liliopsida Os.10458 35
Os08g0154700 35
  • 69.63 (n)
  • 73.33 (a)
wheat
(Triticum aestivum)
Liliopsida Ta.6511 35
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.4351 35
bread mold
(Neurospora crassa)
Ascomycetes NCU07382 35
  • 59.92 (n)
  • 63.1 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes lsm2 35
  • 56.84 (n)
  • 61.05 (a)
Species with no ortholog for LSM2:
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • beta proteobacteria (Neisseria meningitidis)
  • 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)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • 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)

Evolution for LSM2 Gene

ENSEMBL:
Gene Tree for LSM2 (if available)
TreeFam:
Gene Tree for LSM2 (if available)

Paralogs for LSM2 Gene

(3) SIMAP similar genes for LSM2 Gene using alignment to 1 proteins:

Pseudogenes.org Pseudogenes for LSM2 Gene

genes like me logo Genes that share paralogs with LSM2: view

No data available for Paralogs for LSM2 Gene

Variants for LSM2 Gene

Structural Variations from Database of Genomic Variants (DGV) for LSM2 Gene

Variant ID Type Subtype PubMed ID
dgv6582n71 CNV Loss 21882294
dgv6583n71 CNV Loss 21882294
dgv6584n71 CNV Loss 21882294
dgv6586n71 CNV Loss 21882294
dgv6587n71 CNV Loss 21882294

Variation tolerance for LSM2 Gene

Residual Variation Intolerance Score: 50.73% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LSM2 Gene

HapMap Linkage Disequilibrium report
LSM2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations from dbSNP and Humsavar for LSM2 Gene

Disorders for LSM2 Gene

MalaCards: The human disease database

(1) MalaCards diseases for LSM2 Gene - From: NovoSeek and GeneCards

Disorder Aliases PubMed IDs
spinal muscular atrophy
  • werdnig-hoffmann disease
- elite association
Search LSM2 in MalaCards View complete list of genes associated with diseases

Relevant External Links for LSM2

Genetic Association Database (GAD)
LSM2
Human Genome Epidemiology (HuGE) Navigator
LSM2
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LSM2
genes like me logo Genes that share disorders with LSM2: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LSM2 Gene

Publications for LSM2 Gene

  1. Coilin-dependent snRNP assembly is essential for zebrafish embryogenesis. (PMID: 20357773) Strzelecka M. … Neugebauer K.M. (Nat. Struct. Mol. Biol. 2010) 23 67
  2. Alternative splicing regulatory network reconstruction from exon array data. (PMID: 20043923) Qu K. … Ortoleva P.J. (J. Theor. Biol. 2010) 23 67
  3. Gemin5 delivers snRNA precursors to the SMN complex for snRNP biogenesis. (PMID: 20513430) Yong J. … Dreyfuss G. (Mol. Cell 2010) 23 67
  4. A mutation linked to retinitis pigmentosa in HPRP31 causes protein instability and impairs its interactions with spliceosomal snRNPs. (PMID: 19293337) HuranovA! M. … Stanek D. (Hum. Mol. Genet. 2009) 23 67
  5. Role of survival motor neuron complex components in small nuclear ribonucleoprotein assembly. (PMID: 19321448) Ogawa C. … Suzuki H. (J. Biol. Chem. 2009) 23 67

Products for LSM2 Gene

Sources for LSM2 Gene

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