This gene encodes a member of the like-Sm family of proteins. The encoded protein consists of a closed barrel shape, made up of five anti-parallel beta strands and an alpha helix. This protein partners with six paralogs to form a heteroheptameric ring which transiently binds U6 small nuclear RNAs and is involved in the general maturation of RNA in the nucleus. [provided by RefS... See more...

Aliases for LSM8 Gene

Aliases for LSM8 Gene

  • LSM8 Homolog, U6 Small Nuclear RNA Associated 2 3 5
  • U6 SnRNA-Associated Sm-Like Protein LSm8 3 4
  • LSM8 Homolog, U6 Small Nuclear RNA Associated (S. Cerevisiae) 2
  • N-Alpha-Acetyltransferase 38, NatC Auxiliary Subunit 3
  • LSM8 U6 Small Nuclear RNA Associated 3
  • MAK31-Like Protein 3
  • YJR022W 2
  • NAA38 3
  • LSM8 5

External Ids for LSM8 Gene

Previous GeneCards Identifiers for LSM8 Gene

  • GC07P116302
  • GC07P117364
  • GC07P117378
  • GC07P117418
  • GC07P117611
  • GC07P117825

Summaries for LSM8 Gene

Entrez Gene Summary for LSM8 Gene

  • This gene encodes a member of the like-Sm family of proteins. The encoded protein consists of a closed barrel shape, made up of five anti-parallel beta strands and an alpha helix. This protein partners with six paralogs to form a heteroheptameric ring which transiently binds U6 small nuclear RNAs and is involved in the general maturation of RNA in the nucleus. [provided by RefSeq, Jan 2010]

GeneCards Summary for LSM8 Gene

LSM8 (LSM8 Homolog, U6 Small Nuclear RNA Associated) is a Protein Coding gene. Diseases associated with LSM8 include Night Blindness, Congenital Stationary, Autosomal Dominant 1 and Retinitis Pigmentosa 35. Among its related pathways are Gene Expression and mRNA Splicing - Major Pathway. Gene Ontology (GO) annotations related to this gene include U6 snRNA 3'-end binding. An important paralog of this gene is LSM1.

UniProtKB/Swiss-Prot Summary for LSM8 Gene

  • Plays role in pre-mRNA splicing as component of the U4/U6-U5 tri-snRNP complex that is involved in spliceosome assembly, and as component of the precatalytic spliceosome (spliceosome B complex) (PubMed:28781166). The heptameric LSM2-8 complex binds specifically to the 3'-terminal U-tract of U6 snRNA (PubMed:10523320).

Gene Wiki entry for LSM8 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for LSM8 Gene

Genomics for LSM8 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for LSM8 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH07J118182 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE CraniofacialAtlas 633.8 +0.4 425 4.5 BRCA1 ARHGAP35 CREB1 GATAD2A ZNF629 REST ZNF512 LEF1 SOX13 IKZF1 LSM8 ENSG00000234826 LOC105375470 lnc-CTTNBP2-3 ANKRD7 MN298439
GH07J118214 Promoter/Enhancer 1.7 EPDnew Ensembl ENCODE CraniofacialAtlas 29.1 +30.3 30330 1.5 PRDM10 PATZ1 POLR2A ZNF501 ZNF600 ZNF561 NRF1 KLF9 ZBTB20 SP2 ANKRD7 LSM8 piR-38605-011
GH07J117870 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 14.6 -311.8 -311843 4.2 PRDM10 ZNF692 PRDM1 PHF21A ZIC2 ZSCAN4 POLR2A PATZ1 ZNF501 ZNF600 CTTNBP2 LSM8 HSALNG0060806 ASZ1
GH07J117773 Enhancer 0.9 Ensembl dbSUPER 30.1 -409.6 -409643 4.6 IKZF2 TRIM22 PKNOX1 DPF2 HMBOX1 RELB RUNX3 GATAD2B MCM3 ZNF316 LSM8 CTTNBP2 CAPZA2 CFTR HSALNG0060803 lnc-ASZ1-4 ASZ1
GH07J117791 Promoter/Enhancer 1.3 Ensembl ENCODE 12.9 -391.9 -391930 1.4 LEF1 IKZF1 ETV6 JUND MTA2 HNRNPUL1 PKNOX1 ZNF24 MTA1 REST lnc-ASZ1-4 LSM8 HSALNG0060806 CTTNBP2 ASZ1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LSM8 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for LSM8

Top Transcription factor binding sites by QIAGEN in the LSM8 gene promoter:
  • AML1a
  • c-Myb
  • Cart-1
  • Nkx6-1
  • POU2F1
  • POU2F1a
  • POU2F1b
  • POU2F1c
  • S8

Genomic Locations for LSM8 Gene

Genomic Locations for LSM8 Gene
chr7:118,184,144-118,204,035
(GRCh38/hg38)
Size:
19,892 bases
Orientation:
Plus strand
chr7:117,824,086-117,844,093
(GRCh37/hg19)
Size:
20,008 bases
Orientation:
Plus strand

Genomic View for LSM8 Gene

Genes around LSM8 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LSM8 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LSM8 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LSM8 Gene

Proteins for LSM8 Gene

  • Protein details for LSM8 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O95777-LSM8_HUMAN
    Recommended name:
    U6 snRNA-associated Sm-like protein LSm8
    Protein Accession:
    O95777

    Protein attributes for LSM8 Gene

    Size:
    96 amino acids
    Molecular mass:
    10403 Da
    Quaternary structure:
    • Component of the precatalytic spliceosome (spliceosome B complex) (PubMed:28781166). Component of the U4/U6-U5 tri-snRNP complex, a building block of the precatalytic spliceosome (spliceosome B complex) (PubMed:10523320, PubMed:28781166, PubMed:26912367). The U4/U6-U5 tri-snRNP complex is composed of the U4, U6 and U5 snRNAs and at least PRPF3, PRPF4, PRPF6, PRPF8, PRPF31, SNRNP200, TXNL4A, SNRNP40, SNRPB, SNRPD1, SNRPD2, SNRPD3, SNRPE, SNRPF, SNRPG, DDX23, CD2BP2, PPIH, SNU13, EFTUD2, SART1 and USP39, plus LSM2, LSM3, LSM4, LSM5, LSM6, LSM7 and LSM8 (PubMed:26912367). LSM2, LSM3, LSM4, LSM5, LSM6, LSM7 and LSM8 form a heptameric, ring-shaped subcomplex (the LSM2-8 complex) that is part of the U4/U6-U5 tri-snRNP complex and the precatalytic spliceosome (PubMed:10523320, PubMed:26912367, PubMed:28781166).

    Three dimensional structures from OCA and Proteopedia for LSM8 Gene

neXtProt entry for LSM8 Gene

Post-translational modifications for LSM8 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for LSM8 Gene

No data available for DME Specific Peptides for LSM8 Gene

Domains & Families for LSM8 Gene

Gene Families for LSM8 Gene

HGNC:
Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted intracellular proteins

Protein Domains for LSM8 Gene

InterPro:
Blocks:
  • Small nuclear ribonucleoprotein (Sm protein)
  • Like-Sm ribonucleoprotein-related, core
ProtoNet:

Suggested Antigen Peptide Sequences for LSM8 Gene

GenScript: Design optimal peptide antigens:
  • cDNA, FLJ92203, Homo sapiens LSM8 homolog, U6 small nuclear RNA associated (S.cerevisiae) (LSM8), mRNA (A4D0W0_HUMAN)

Graphical View of Domain Structure for InterPro Entry

O95777

UniProtKB/Swiss-Prot:

LSM8_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 LSM8: view

Function for LSM8 Gene

Molecular function for LSM8 Gene

UniProtKB/Swiss-Prot Function:
Plays role in pre-mRNA splicing as component of the U4/U6-U5 tri-snRNP complex that is involved in spliceosome assembly, and as component of the precatalytic spliceosome (spliceosome B complex) (PubMed:28781166). The heptameric LSM2-8 complex binds specifically to the 3'-terminal U-tract of U6 snRNA (PubMed:10523320).

Phenotypes From GWAS Catalog for LSM8 Gene

Gene Ontology (GO) - Molecular Function for LSM8 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IEA,IBA 21873635
GO:0005515 protein binding IPI 14667819
GO:0017070 U6 snRNA binding NAS 10523320
genes like me logo Genes that share ontologies with LSM8: view
genes like me logo Genes that share phenotypes with LSM8: view

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LSM8

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LSM8 Gene

Localization for LSM8 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LSM8 Gene

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 LSM8 gene
Compartment Confidence
nucleus 5
cytosol 3
extracellular 1
cytoskeleton 1
mitochondrion 1
endoplasmic reticulum 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoplasm (2)
  • Vesicles (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for LSM8 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,IDA 26912367
GO:0005654 nucleoplasm TAS --
GO:0005681 spliceosomal complex IEA --
GO:0005688 U6 snRNP IEA,IBA 21873635
GO:0046540 U4/U6 x U5 tri-snRNP complex IEA,IDA 26912367
genes like me logo Genes that share ontologies with LSM8: view

Pathways & Interactions for LSM8 Gene

genes like me logo Genes that share pathways with LSM8: view

Pathways by source for LSM8 Gene

Gene Ontology (GO) - Biological Process for LSM8 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000398 mRNA splicing, via spliceosome IEA,TAS --
GO:0006397 mRNA processing IEA --
GO:0008380 RNA splicing IEA --
GO:0016070 RNA metabolic process IBA 21873635
genes like me logo Genes that share ontologies with LSM8: view

No data available for SIGNOR curated interactions for LSM8 Gene

Drugs & Compounds for LSM8 Gene

No Compound Related Data Available

Transcripts for LSM8 Gene

mRNA/cDNA for LSM8 Gene

1 REFSEQ mRNAs :
15 NCBI additional mRNA sequence :
4 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LSM8

Alternative Splicing Database (ASD) splice patterns (SP) for LSM8 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5a · 5b · 5c · 5d · 5e
SP1: - - -
SP2: - - - -
SP3: - -
SP4: -
SP5: -

Relevant External Links for LSM8 Gene

GeneLoc Exon Structure for
LSM8

Expression for LSM8 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LSM8 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for LSM8 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (16.9) and Nasal epithelium (13.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for LSM8 Gene



Protein tissue co-expression partners for LSM8 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LSM8

Evidence on tissue expression from TISSUES for LSM8 Gene

  • Nervous system(4.8)
  • Liver(4.4)
  • Skin(2.1)
genes like me logo Genes that share expression patterns with LSM8: view

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for LSM8 Gene

Orthologs for LSM8 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for LSM8 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia LSM8 30
  • 100 (n)
NAA38 31
  • 100 (a)
OneToOne
Mouse
(Mus musculus)
Mammalia Naa38 31
  • 100 (a)
OneToOne
Lsm8 30 17
  • 87.5 (n)
Platypus
(Ornithorhynchus anatinus)
Mammalia NAA38 31
  • 99 (a)
OneToOne
Dog
(Canis familiaris)
Mammalia NAA38 31
  • 96 (a)
OneToOne
LOC100685900 30
  • 92.01 (n)
Cow
(Bos Taurus)
Mammalia NAA38 30 31
  • 93.75 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Lsm8 30
  • 86.81 (n)
Oppossum
(Monodelphis domestica)
Mammalia NAA38 31
  • 83 (a)
OneToOne
Chicken
(Gallus gallus)
Aves NAA38 31
  • 95 (a)
OneToOne
LSM8 30
  • 85.76 (n)
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia lsm8 30
  • 84.72 (n)
Zebrafish
(Danio rerio)
Actinopterygii lsm8 30 31
  • 76.04 (n)
OneToOne
Dr.17055 30
Rainbow Trout
(Oncorhynchus mykiss)
Actinopterygii Omy.13915 30
Fruit Fly
(Drosophila melanogaster)
Insecta CG2021 30 31
  • 60.99 (n)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP011837 30
  • 56.74 (n)
Worm
(Caenorhabditis elegans)
Secernentea lsm-8 30 31
  • 53.55 (n)
OneToOne
Baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes LSM8 33
Thale Cress
(Arabidopsis thaliana)
eudicotyledons AT1G65700 30
  • 61.05 (n)
Rice
(Oryza sativa)
Liliopsida Os05g0594900 30
  • 59.37 (n)
Sea Vase
(Ciona intestinalis)
Ascidiacea Cin.4849 30
Species where no ortholog for LSM8 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • 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)
  • 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)
  • Lizard (Anolis carolinensis)
  • 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 Squirt (Ciona savignyi)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)

Evolution for LSM8 Gene

ENSEMBL:
Gene Tree for LSM8 (if available)
TreeFam:
Gene Tree for LSM8 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for LSM8: view image

Paralogs for LSM8 Gene

Paralogs for LSM8 Gene

(6) SIMAP similar genes for LSM8 Gene using alignment to 2 proteins:

  • LSM8_HUMAN
  • A4D0W0_HUMAN
genes like me logo Genes that share paralogs with LSM8: view

Variants for LSM8 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for LSM8 Gene

SNP ID Clinical significance and condition Chr 07 pos Variation AA Info Type
784116 Benign: not provided 118,188,313(+) G/A SYNONYMOUS_VARIANT

Additional dbSNP identifiers (rs#s) for LSM8 Gene

Structural Variations from Database of Genomic Variants (DGV) for LSM8 Gene

Variant ID Type Subtype PubMed ID
nsv5920 CNV insertion 18451855
nsv608259 CNV gain 21841781
nsv7405 OTHER inversion 18451855

Additional Variant Information for LSM8 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LSM8

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for LSM8 Gene

Disorders for LSM8 Gene

MalaCards: The human disease database

(3) MalaCards diseases for LSM8 Gene - From: DISEASES and GeneCards

- elite association - COSMIC cancer census association via MalaCards
Search LSM8 in MalaCards View complete list of genes associated with diseases
genes like me logo Genes that share disorders with LSM8: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LSM8 Gene

Publications for LSM8 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 … Lührmann R (The EMBO journal 1999) 2 3 4
  2. Cryo-EM Structure of a Pre-catalytic Human Spliceosome Primed for Activation. (PMID: 28781166) Bertram K … Stark H (Cell 2017) 3 4
  3. Molecular architecture of the human U4/U6.U5 tri-snRNP. (PMID: 26912367) Agafonov DE … Stark H (Science (New York, N.Y.) 2016) 3 4
  4. A synopsis of eukaryotic Nalpha-terminal acetyltransferases: nomenclature, subunits and substrates. (PMID: 19660095) Polevoda B … Sherman F (BMC proceedings 2009) 2 3
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4

Products for LSM8 Gene

Sources for LSM8 Gene