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Aliases for LSM11 Gene

Aliases for LSM11 Gene

  • LSM11, U7 Small Nuclear RNA Associated 2 3 5
  • LSM11 Homolog, U7 Small Nuclear RNA Associated (S. Cerevisiae) 2

External Ids for LSM11 Gene

Previous GeneCards Identifiers for LSM11 Gene

  • GC05P157151
  • GC05P157103
  • GC05P157171
  • GC05P152259

Summaries for LSM11 Gene

GeneCards Summary for LSM11 Gene

LSM11 (LSM11, U7 Small Nuclear RNA Associated) is a Protein Coding gene. Among its related pathways are Processing of Capped Intronless Pre-mRNA and RNA Polymerase II Transcription Termination. GO annotations related to this gene include U7 snRNA binding.

UniProtKB/Swiss-Prot for LSM11 Gene

  • Component of the U7 snRNP complex that is involved in the histone 3-end pre-mRNA processing (By similarity). Increases U7 snRNA levels but not histone 3-end pre-mRNA processing activity, when overexpressed. Required for cell cycle progression from G1 to S phases. Binds specifically to the Sm-binding site of U7 snRNA.

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LSM11 Gene

Genomics for LSM11 Gene

Regulatory Elements for LSM11 Gene

Enhancers for LSM11 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH05F157141 0.6 ENCODE 10.1 -600.7 -600714 2.5 PKNOX1 CREB3L1 ARID4B SIN3A FEZF1 DMAP1 YY1 ZNF143 FOS CEBPZ THG1L CLINT1 LSM11 HAVCR1 ITK MED7
GH05F157747 0.6 ENCODE 4.9 +5.3 5342 3.5 CTCF PKNOX1 JUN FEZF1 ZIC2 RAD21 ZFHX2 SCRT2 HNF4G FOS THG1L LSM11 CYFIP2 ENSG00000253630 GC05P157765
GH05F157446 1.1 Ensembl ENCODE 4.3 -296.3 -296300 1.1 E2F1 KLF1 POLR2A NIPAL4 FNDC9 LOC102724404 LSM11 GC05M157276 GC05P157423
GH05F157743 0.6 ENCODE 0.8 +0.4 373 1.7 HDGF PKNOX1 WRNIP1 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 ZNF207 THG1L ENSG00000253630 LSM11
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around LSM11 on UCSC Golden Path with GeneCards custom track

Promoters for LSM11 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001294987 305 1601 HDGF PKNOX1 WRNIP1 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 ZNF207

Genomic Location for LSM11 Gene

Chromosome:
5
Start:
157,743,695 bp from pter
End:
157,760,709 bp from pter
Size:
17,015 bases
Orientation:
Plus strand

Genomic View for LSM11 Gene

Genes around LSM11 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LSM11 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LSM11 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LSM11 Gene

Proteins for LSM11 Gene

  • Protein details for LSM11 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P83369-LSM11_HUMAN
    Recommended name:
    U7 snRNA-associated Sm-like protein LSm11
    Protein Accession:
    P83369
    Secondary Accessions:
    • A0AVQ1
    • Q7Z7P0
    • Q8N975

    Protein attributes for LSM11 Gene

    Size:
    360 amino acids
    Molecular mass:
    39500 Da
    Quaternary structure:
    • Component of the heptameric ring U7 snRNP complex, or U7 Sm protein core complex, at least composed of LSM10, LSM11, SNRPB, SNRPD3, SNRPE, SNRPF, SNRPG and U7 snRNA. Formation of the U7 snRNP is an ATP-dependent process mediated by a specialized SMN complex containing at least the Sm protein core complex and additionally, the U7-specific LSM10 and LSM11 proteins. Interacts with LSM10, SMN, SNRPB and ZNF473. Identified in a histone pre-mRNA complex, at least composed of ERI1, LSM11, SLBP, SNRPB, SYNCRIP and YBX1 (By similarity). Interacts (via the Sm domains) with CLNS1A. Interacts with PRMT5 and WDR77 (By similarity).

neXtProt entry for LSM11 Gene

Post-translational modifications for LSM11 Gene

Other Protein References for LSM11 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for LSM11 Gene

Domains & Families for LSM11 Gene

Suggested Antigen Peptide Sequences for LSM11 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P83369

UniProtKB/Swiss-Prot:

LSM11_HUMAN :
  • The C-terminal SM 1 domain is both necessary for the binding to the Sm-binding site of U7 snRNA and U7 snRNP assembly (By similarity). The N-terminal domain is essential for histone pre-mRNA cleavage. Amino acids 63-82 are sufficient to interact with ZNF473.
  • Belongs to the snRNP Sm proteins family.
Domain:
  • The C-terminal SM 1 domain is both necessary for the binding to the Sm-binding site of U7 snRNA and U7 snRNP assembly (By similarity). The N-terminal domain is essential for histone pre-mRNA cleavage. Amino acids 63-82 are sufficient to interact with ZNF473.
Family:
  • Belongs to the snRNP Sm proteins family.
genes like me logo Genes that share domains with LSM11: view

No data available for Gene Families for LSM11 Gene

Function for LSM11 Gene

Molecular function for LSM11 Gene

UniProtKB/Swiss-Prot Function:
Component of the U7 snRNP complex that is involved in the histone 3-end pre-mRNA processing (By similarity). Increases U7 snRNA levels but not histone 3-end pre-mRNA processing activity, when overexpressed. Required for cell cycle progression from G1 to S phases. Binds specifically to the Sm-binding site of U7 snRNA.

Gene Ontology (GO) - Molecular Function for LSM11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 12975319
GO:0071209 U7 snRNA binding IPI 18082603
genes like me logo Genes that share ontologies with LSM11: view

Phenotypes for LSM11 Gene

genes like me logo Genes that share phenotypes with LSM11: view

Animal Models for LSM11 Gene

MGI Knock Outs for LSM11:

Animal Model Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for LSM11 Gene

Localization for LSM11 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LSM11 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for LSM11 Gene COMPARTMENTS Subcellular localization image for LSM11 gene
Compartment Confidence
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for LSM11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,IDA 12975319
GO:0005654 nucleoplasm TAS --
GO:0005683 U7 snRNP IEA,ISS --
GO:0005697 colocalizes_with telomerase holoenzyme complex IDA 18082603
GO:0030529 intracellular ribonucleoprotein complex IEA --
genes like me logo Genes that share ontologies with LSM11: view

Pathways & Interactions for LSM11 Gene

genes like me logo Genes that share pathways with LSM11: view

Gene Ontology (GO) - Biological Process for LSM11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006369 termination of RNA polymerase II transcription TAS --
GO:0006397 mRNA processing IEA --
GO:0006398 mRNA 3-end processing by stem-loop binding and cleavage IEA,ISS --
GO:0008334 histone mRNA metabolic process TAS --
GO:1900087 positive regulation of G1/S transition of mitotic cell cycle IMP 16914750
genes like me logo Genes that share ontologies with LSM11: view

No data available for SIGNOR curated interactions for LSM11 Gene

Transcripts for LSM11 Gene

mRNA/cDNA for LSM11 Gene

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

Unigene Clusters for LSM11 Gene

LSM11, U7 small nuclear RNA associated:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for LSM11 Gene

No ASD Table

Relevant External Links for LSM11 Gene

GeneLoc Exon Structure for
LSM11
ECgene alternative splicing isoforms for
LSM11

Expression for LSM11 Gene

mRNA expression in normal human tissues for LSM11 Gene

Protein differential expression in normal tissues from HIPED for LSM11 Gene

This gene is overexpressed in Breast (28.0), Lung (13.4), and Plasma (8.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for LSM11 Gene



Protein tissue co-expression partners for LSM11 Gene

NURSA nuclear receptor signaling pathways regulating expression of LSM11 Gene:

LSM11

SOURCE GeneReport for Unigene cluster for LSM11 Gene:

Hs.631954
genes like me logo Genes that share expression patterns with LSM11: view

Primer 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 LSM11 Gene

Orthologs for LSM11 Gene

This gene was present in the common ancestor of chordates.

Orthologs for LSM11 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LSM11 34 35
  • 99.44 (n)
cow
(Bos Taurus)
Mammalia LSM11 34 35
  • 90.53 (n)
rat
(Rattus norvegicus)
Mammalia Lsm11 34
  • 85.38 (n)
mouse
(Mus musculus)
Mammalia Lsm11 34 16 35
  • 85.05 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia LSM11 35
  • 82 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia LSM11 35
  • 76 (a)
OneToOne
chicken
(Gallus gallus)
Aves LSM11 34 35
  • 65.91 (n)
lizard
(Anolis carolinensis)
Reptilia LSM11 35
  • 54 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lsm11 34
  • 60 (n)
African clawed frog
(Xenopus laevis)
Amphibia LSM11 34
zebrafish
(Danio rerio)
Actinopterygii lsm11 35 35
  • 48 (a)
OneToMany
Dr.15509 34
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.13176 34
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 27 (a)
OneToOne
Species where no ortholog for LSM11 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • dog (Canis familiaris)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • 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 (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for LSM11 Gene

ENSEMBL:
Gene Tree for LSM11 (if available)
TreeFam:
Gene Tree for LSM11 (if available)

Paralogs for LSM11 Gene

No data available for Paralogs for LSM11 Gene

Variants for LSM11 Gene

Sequence variations from dbSNP and Humsavar for LSM11 Gene

SNP ID Clin Chr 05 pos Sequence Context AA Info Type
rs10036560 -- 157,761,088(+) AACCC(A/G)GGAGG downstream-variant-500B
rs10045660 -- 157,760,912(+) AATCG(C/T)GGCAC downstream-variant-500B
rs10061308 -- 157,744,575(+) GTGGC(A/G)GGGCT intron-variant
rs10061399 -- 157,742,455(+) ATCTC(A/G)GCTCA upstream-variant-2KB
rs10066198 -- 157,754,635(+) CGCAG(C/T)GAGCT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for LSM11 Gene

Variant ID Type Subtype PubMed ID
esv2759389 CNV loss 17122850
nsv5090 CNV insertion 18451855

Variation tolerance for LSM11 Gene

Residual Variation Intolerance Score: 17% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.32; 41.43% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LSM11 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LSM11

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LSM11 Gene

Disorders for LSM11 Gene

Relevant External Links for LSM11

Genetic Association Database (GAD)
LSM11
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LSM11

No disorders were found for LSM11 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LSM11 Gene

Publications for LSM11 Gene

  1. Unique Sm core structure of U7 snRNPs: assembly by a specialized SMN complex and the role of a new component, Lsm11, in histone RNA processing. (PMID: 12975319) Pillai R.S. … Schuemperli D. (Genes Dev. 2003) 2 3 4 22 64
  2. ZFP100, a component of the active U7 snRNP limiting for histone pre- mRNA processing, is required for entry into S phase. (PMID: 16914750) Wagner E.J. … Marzluff W.F. (Mol. Cell. Biol. 2006) 3 4 22 64
  3. Conserved zinc fingers mediate multiple functions of ZFP100, a U7snRNP associated protein. (PMID: 16714279) Wagner E.J. … Marzluff W.F. (RNA 2006) 3 4 64
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64

Products for LSM11 Gene

Sources for LSM11 Gene

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