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Aliases for LSM7 Gene

Aliases for LSM7 Gene

  • LSM7 Homolog, U6 Small Nuclear RNA And MRNA Degradation Associated 2 3 5
  • U6 SnRNA-Associated Sm-Like Protein LSm7 3 4
  • LSM7 Homolog, U6 Small Nuclear RNA Associated (S. Cerevisiae) 2
  • LSM7 U6 Small Nuclear RNA And MRNA Degradation Associated 3
  • LSM7 Homolog, U6 Small Nuclear RNA Associated 3
  • YNL147W 3

External Ids for LSM7 Gene

Previous GeneCards Identifiers for LSM7 Gene

  • GC19M002384
  • GC19M002261
  • GC19M002272
  • GC19M002092

Summaries for LSM7 Gene

Entrez Gene Summary for LSM7 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 LSM7 Gene

LSM7 (LSM7 Homolog, U6 Small Nuclear RNA And MRNA Degradation Associated) is a Protein Coding gene. Among its related pathways are Deadenylation-dependent mRNA decay and mRNA Splicing - Major Pathway. Gene Ontology (GO) annotations related to this gene include U6 snRNA binding. An important paralog of this gene is SNRPG.

UniProtKB/Swiss-Prot for LSM7 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 LSM7 Gene

Additional gene information for LSM7 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LSM7 Gene

Genomics for LSM7 Gene

GeneHancer (GH) Regulatory Elements for LSM7 Gene

Promoters and enhancers for LSM7 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
GH19J002326 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 631.2 -2.3 -2253 8.2 SP1 ELF3 ZFX MNT NKRF POLR2A CEBPG GTF2F1 CSDE1 ZNF687 LSM7 SPPL2B REXO1 MKNK2 GNG7 CSNK1G2 PIR56954 ENSG00000273734
GH19J002697 Promoter/Enhancer 2.3 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 600 -372.1 -372051 5.5 SP1 POLR2A ZNF687 SP7 CREM MLLT1 ZNF404 IKZF1 CREB1 GLIS2 GNG7 ENSG00000276097 LSM7 SF3A2 LOC100288123 CACTIN-AS1 CACTIN ZNF77 ENSG00000267139 DOT1L
GH19J002360 Promoter/Enhancer 1.4 EPDnew Ensembl 46.1 -32.6 -32586 3.2 MLLT1 GTF2F1 CDC5L IKZF1 MCM2 TRIM24 CREB1 ZNF488 ZSCAN4 ZNF24 TMPRSS9 LSM7 SF3A2 LOC100288123 DAZAP1 TCF3 ZNF77 ENSG00000267317 SPPL2B ENSG00000267283
GH19J002324 Promoter/Enhancer 1.3 Ensembl ENCODE dbSUPER 29.1 +3.4 3441 2.2 ZNF121 ZIC2 ZSCAN4 ZNF776 ZNF10 POLR2A ZFHX2 STAT5A HIC1 EGR2 LSM7 SPPL2B ENSG00000261526 ZNF77 ENSG00000267283 AP3D1 LMNB2 LINGO3 ENSG00000273734
GH19J002268 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 14 +56.5 56469 7.5 HDGF ZFX SP1 CTCF ELF3 MNT SIX5 ZNF148 NKRF POLR2A GC19M002271 GC19P002271 OAZ1 SF3A2 ZNF77 DAZAP1 TCF3 LSM7 LINGO3 ZNF555
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LSM7 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the LSM7 gene promoter:
  • FOXJ2
  • FOXJ2 (long isoform)
  • GR
  • GR-alpha
  • Sp1
  • STAT5A
  • USF-1
  • USF-1:USF-2
  • USF1
  • USF2

Genomic Locations for LSM7 Gene

Genomic Locations for LSM7 Gene
chr19:2,321,520-2,328,615
(GRCh38/hg38)
Size:
7,096 bases
Orientation:
Minus strand
chr19:2,321,516-2,328,619
(GRCh37/hg19)
Size:
7,104 bases
Orientation:
Minus strand

Genomic View for LSM7 Gene

Genes around LSM7 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LSM7 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LSM7 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LSM7 Gene

Proteins for LSM7 Gene

  • Protein details for LSM7 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9UK45-LSM7_HUMAN
    Recommended name:
    U6 snRNA-associated Sm-like protein LSm7
    Protein Accession:
    Q9UK45

    Protein attributes for LSM7 Gene

    Size:
    103 amino acids
    Molecular mass:
    11602 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). Interacts with TACC1 (PubMed:12165861).

    Three dimensional structures from OCA and Proteopedia for LSM7 Gene

neXtProt entry for LSM7 Gene

Post-translational modifications for LSM7 Gene

  • Ubiquitination at isoforms=21 and posLast=1717
  • Modification sites at PhosphoSitePlus

Other Protein References for LSM7 Gene

No data available for DME Specific Peptides for LSM7 Gene

Domains & Families for LSM7 Gene

Gene Families for LSM7 Gene

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

Suggested Antigen Peptide Sequences for LSM7 Gene

GenScript: Design optimal peptide antigens:
  • U6 snRNA-associated Sm-like protein LSm7 (LSM7_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9UK45

UniProtKB/Swiss-Prot:

LSM7_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 LSM7: view

Function for LSM7 Gene

Molecular function for LSM7 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 LSM7 Gene

Gene Ontology (GO) - Molecular Function for LSM7 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 contributes_to RNA binding IBA,IEA 21873635
GO:0005515 protein binding IPI 12165861
GO:0017070 U6 snRNA binding NAS 10523320
genes like me logo Genes that share ontologies with LSM7: view
genes like me logo Genes that share phenotypes with LSM7: view

Animal Model Products

CRISPR Products

miRNA for LSM7 Gene

miRTarBase miRNAs that target LSM7

Clone Products

  • Applied Biological Materials (abm): Clones for LSM7 - Now 50% OFF >
  • * LSM7 as ready-to-use vector or virus: ORF | Lenti- | Retro- | Adeno- | AAV- | Protein Vector - Browse All
  • * LSM7 tags and reporters available: His, HA, Myc, Flag, GFP, RFP, Luciferase - Browse All

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LSM7 Gene

Localization for LSM7 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LSM7 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 LSM7 gene
Compartment Confidence
nucleus 5
cytosol 4
mitochondrion 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoli fibrillar center (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for LSM7 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 IBA 21873635
GO:0005689 U12-type spliceosomal complex IBA 21873635
genes like me logo Genes that share ontologies with LSM7: view

Pathways & Interactions for LSM7 Gene

genes like me logo Genes that share pathways with LSM7: view

Pathways by source for LSM7 Gene

Gene Ontology (GO) - Biological Process for LSM7 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000398 mRNA splicing, via spliceosome TAS --
GO:0000956 nuclear-transcribed mRNA catabolic process IEA --
GO:0006397 mRNA processing IEA --
GO:0008380 RNA splicing IEA --
GO:0043928 exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay TAS --
genes like me logo Genes that share ontologies with LSM7: view

No data available for SIGNOR curated interactions for LSM7 Gene

Drugs & Compounds for LSM7 Gene

No Compound Related Data Available

Transcripts for LSM7 Gene

mRNA/cDNA for LSM7 Gene

Unigene Clusters for LSM7 Gene

LSM7 homolog, U6 small nuclear RNA associated (S. cerevisiae):
Representative Sequences:

CRISPR Products

Clone Products

  • Applied Biological Materials (abm): Clones for LSM7 - Now 50% OFF >
  • * LSM7 as ready-to-use vector or virus: ORF | Lenti- | Retro- | Adeno- | AAV- | Protein Vector - Browse All
  • * LSM7 tags and reporters available: His, HA, Myc, Flag, GFP, RFP, Luciferase - Browse All

Alternative Splicing Database (ASD) splice patterns (SP) for LSM7 Gene

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

Relevant External Links for LSM7 Gene

GeneLoc Exon Structure for
LSM7
ECgene alternative splicing isoforms for
LSM7

Expression for LSM7 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LSM7 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for LSM7 Gene

This gene is overexpressed in Liver (24.7) and Peripheral blood mononuclear cells (11.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for LSM7 Gene



Protein tissue co-expression partners for LSM7 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of LSM7 Gene:

LSM7

SOURCE GeneReport for Unigene cluster for LSM7 Gene:

Hs.512610
genes like me logo Genes that share expression patterns with LSM7: view

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for LSM7 Gene

Orthologs for LSM7 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for LSM7 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LSM7 35 34
  • 100 (n)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia LSM7 35
  • 99 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Gm10146 35
  • 97 (a)
OneToMany
Lsm7 17 35 34
  • 87.06 (n)
dog
(Canis familiaris)
Mammalia LSM7 35 34
  • 91.59 (n)
OneToOne
cow
(Bos Taurus)
Mammalia LSM7 35 34
  • 90.94 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Lsm7 34
  • 85.76 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia LSM7 35
  • 49 (a)
OneToOne
chicken
(Gallus gallus)
Aves LSM7 35 34
  • 77.99 (n)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lsm7 34
  • 76.05 (n)
zebrafish
(Danio rerio)
Actinopterygii lsm7 35 34
  • 79.61 (n)
OneToOne
wufj64g01 34
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.8944 34
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP008122 34
  • 72.79 (n)
fruit fly
(Drosophila melanogaster)
Insecta LSm7 35 34
  • 70.1 (n)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea lsm-7 35 34
  • 56.33 (n)
OneToOne
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AFR053C 34
  • 61.96 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0E22881g 34
  • 51.69 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes LSM7 37 35 34
  • 49.81 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT2G03870 34
  • 58.87 (n)
rice
(Oryza sativa)
Liliopsida Os08g0177700 34
  • 61.48 (n)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes lsm7 34
  • 52.08 (n)
Species where no ortholog for LSM7 was found in the sources mined by GeneCards:
  • 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)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • 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 intestinalis)
  • 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 LSM7 Gene

ENSEMBL:
Gene Tree for LSM7 (if available)
TreeFam:
Gene Tree for LSM7 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for LSM7: view image

Paralogs for LSM7 Gene

Paralogs for LSM7 Gene

(2) SIMAP similar genes for LSM7 Gene using alignment to 3 proteins:

  • LSM7_HUMAN
  • K7EML7_HUMAN
  • K7ENY5_HUMAN
genes like me logo Genes that share paralogs with LSM7: view

Variants for LSM7 Gene

Sequence variations from dbSNP and Humsavar for LSM7 Gene

SNP ID Clin Chr 19 pos Variation AA Info Type
rs1000369399 -- 2,329,144(-) C/T upstream_transcript_variant
rs1000782586 -- 2,327,427(-) G/A intron_variant
rs1000976431 -- 2,328,321(-) C/T intron_variant
rs1001145737 -- 2,330,101(-) C/T upstream_transcript_variant
rs1001872731 -- 2,321,875(-) C/A intron_variant

Structural Variations from Database of Genomic Variants (DGV) for LSM7 Gene

Variant ID Type Subtype PubMed ID
dgv6218n54 CNV loss 21841781
esv3643422 CNV gain 21293372
nsv1160562 CNV deletion 26073780
nsv833707 CNV loss 17160897
nsv953944 CNV deletion 24416366

Additional Variant Information for LSM7 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LSM7

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for LSM7 Gene

Disorders for LSM7 Gene

Additional Disease Information for LSM7

No disorders were found for LSM7 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LSM7 Gene

Publications for LSM7 Gene

  1. Carcinogenesis and translational controls: TACC1 is down-regulated in human cancers and associates with mRNA regulators. (PMID: 12165861) Conte N … Birnbaum D (Oncogene 2002) 3 4 23 58
  2. 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 58
  3. Cryo-EM Structure of a Pre-catalytic Human Spliceosome Primed for Activation. (PMID: 28781166) Bertram K … Stark H (Cell 2017) 3 4 58
  4. Molecular architecture of the human U4/U6.U5 tri-snRNP. (PMID: 26912367) Agafonov DE … Stark H (Science (New York, N.Y.) 2016) 3 4 58
  5. The DNA sequence and biology of human chromosome 19. (PMID: 15057824) Grimwood J … Lucas SM (Nature 2004) 3 4 58

Products for LSM7 Gene

Sources for LSM7 Gene

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