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Aliases for LSG1 Gene

Aliases for LSG1 Gene

  • Large 60S Subunit Nuclear Export GTPase 1 2 3 5
  • HLsg1 3 4
  • Large Subunit GTPase 1 Homolog (S. Cerevisiae) 2
  • Large Subunit GTPase 1 Homolog 3
  • EC 3.6.1.- 4

External Ids for LSG1 Gene

Previous GeneCards Identifiers for LSG1 Gene

  • GC03M195843
  • GC03M194361
  • GC03M191741

Summaries for LSG1 Gene

Entrez Gene Summary for LSG1 Gene

  • This gene encodes a protein related to the yeast large subunit GTPase 1. The encoded protein is necessary for cell viability and may localize in the endoplasmic reticulum, nucleus and cytoplasm.[provided by RefSeq, Feb 2009]

GeneCards Summary for LSG1 Gene

LSG1 (Large 60S Subunit Nuclear Export GTPase 1) is a Protein Coding gene. Diseases associated with LSG1 include Parasitic Ectoparasitic Infectious Disease. Among its related pathways are Ribosome biogenesis in eukaryotes. Gene Ontology (GO) annotations related to this gene include GTP binding and GTPase activity. An important paralog of this gene is GNL1.

UniProtKB/Swiss-Prot for LSG1 Gene

  • GTPase required for the XPO1/CRM1-mediated nuclear export of the 60S ribosomal subunit. Probably acts by mediating the release of NMD3 from the 60S ribosomal subunit after export into the cytoplasm (Probable).

Gene Wiki entry for LSG1 Gene

Additional gene information for LSG1 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LSG1 Gene

Genomics for LSG1 Gene

GeneHancer (GH) Regulatory Elements for LSG1 Gene

Promoters and enhancers for LSG1 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
GH03J194670 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 661.6 +0.3 297 2.4 CLOCK DMAP1 IRF4 YY1 E2F8 ZNF143 SP3 MEF2D SSRP1 ZNF610 LSG1 SDHAP2 MUC20-OT1 RNU6ATAC24P FAM43A ACAP2 PIR42376
GH03J194685 Promoter/Enhancer 1.7 Ensembl ENCODE 75.6 -16.4 -16385 7.4 PKNOX1 ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF213 ZNF143 SP3 SP5 LSG1 FAM43A MUC20-OT1 GC03P194686 ENSG00000233987
GH03J194129 Promoter/Enhancer 2.9 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 34.7 +535.9 535883 14.2 CLOCK MLX ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF213 ZNF143 ZNF263 HES1 GC03P194137 LSG1 ENSG00000229964 ENSG00000233987 LINC01972 ENSG00000238031 LRRC15 OPA1-AS1 ENSG00000272707
GH03J194069 Promoter/Enhancer 1.8 Ensembl ENCODE dbSUPER 51.7 +601.3 601251 4.2 HDGF FOXA2 MLX ZFP64 ARID4B NEUROD1 SIN3A DMAP1 ZNF2 YY1 LINC02028 ENSG00000276407 LOC102724877 LSG1 LRRC15 OPA1-AS1 ENSG00000232874 HES1 FAM43A ENSG00000229334
GH03J194583 Promoter/Enhancer 1.8 Ensembl ENCODE dbSUPER 39.2 +88.1 88100 2.3 HDGF FOXA2 SMAD1 ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 POLR2B TMEM44-AS1 LSG1 RNU6ATAC24P OPA1-AS1 LOC105374291
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LSG1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the LSG1 gene promoter:
  • LCR-F1
  • GATA-2
  • Roaz
  • E2F-1
  • E2F
  • YY1
  • FOXL1
  • GATA-1
  • FOXO3

Genomic Locations for LSG1 Gene

Genomic Locations for LSG1 Gene
chr3:194,640,788-194,672,477
(GRCh38/hg38)
Size:
31,690 bases
Orientation:
Minus strand
chr3:194,361,517-194,393,206
(GRCh37/hg19)
Size:
31,690 bases
Orientation:
Minus strand

Genomic View for LSG1 Gene

Genes around LSG1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LSG1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LSG1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LSG1 Gene

Proteins for LSG1 Gene

  • Protein details for LSG1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H089-LSG1_HUMAN
    Recommended name:
    Large subunit GTPase 1 homolog
    Protein Accession:
    Q9H089
    Secondary Accessions:
    • A0JLT4
    • A0PJK3
    • A6NI18
    • Q7L9H8
    • Q9NUK8

    Protein attributes for LSG1 Gene

    Size:
    658 amino acids
    Molecular mass:
    75225 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAH15042.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence.; Evidence={ECO:0000305}; Sequence=AAH40119.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence.; Evidence={ECO:0000305};

neXtProt entry for LSG1 Gene

Post-translational modifications for LSG1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for LSG1 Gene

No data available for DME Specific Peptides for LSG1 Gene

Domains & Families for LSG1 Gene

Gene Families for LSG1 Gene

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

Protein Domains for LSG1 Gene

Suggested Antigen Peptide Sequences for LSG1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9H089

UniProtKB/Swiss-Prot:

LSG1_HUMAN :
  • In contrast to other GTP-binding proteins, this family is characterized by a circular permutation of the GTPase motifs described by a G4-G1-G3 pattern.
  • Belongs to the TRAFAC class YlqF/YawG GTPase family. LSG1 subfamily.
Domain:
  • In contrast to other GTP-binding proteins, this family is characterized by a circular permutation of the GTPase motifs described by a G4-G1-G3 pattern.
Family:
  • Belongs to the TRAFAC class YlqF/YawG GTPase family. LSG1 subfamily.
genes like me logo Genes that share domains with LSG1: view

Function for LSG1 Gene

Molecular function for LSG1 Gene

UniProtKB/Swiss-Prot Function:
GTPase required for the XPO1/CRM1-mediated nuclear export of the 60S ribosomal subunit. Probably acts by mediating the release of NMD3 from the 60S ribosomal subunit after export into the cytoplasm (Probable).

Enzyme Numbers (IUBMB) for LSG1 Gene

Phenotypes From GWAS Catalog for LSG1 Gene

Gene Ontology (GO) - Molecular Function for LSG1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003924 GTPase activity IDA 16209721
GO:0005525 GTP binding IEA,IDA 16209721
GO:0016787 hydrolase activity IEA --
genes like me logo Genes that share ontologies with LSG1: view
genes like me logo Genes that share phenotypes with LSG1: view

Animal Model Products

Clone Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LSG1 Gene

Localization for LSG1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LSG1 Gene

Cytoplasm. Endoplasmic reticulum. Nucleus, Cajal body. Note=Shuttles between the Cajal bodies in the nucleus and the endoplasmic reticulum.

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 LSG1 gene
Compartment Confidence
nucleus 5
endoplasmic reticulum 5
cytosol 5
mitochondrion 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (3)
  • Nuclear bodies (3)
  • Nucleus (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for LSG1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA --
GO:0005737 cytoplasm IEA --
GO:0005783 endoplasmic reticulum IDA,IEA 16209721
GO:0005829 cytosol IBA,IDA --
GO:0015030 Cajal body IEA,IDA 16209721
genes like me logo Genes that share ontologies with LSG1: view

Pathways & Interactions for LSG1 Gene

genes like me logo Genes that share pathways with LSG1: view

Pathways by source for LSG1 Gene

1 KEGG pathway for LSG1 Gene

Gene Ontology (GO) - Biological Process for LSG1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0015031 protein transport IEA --
GO:0042254 ribosome biogenesis IBA --
GO:0051168 nuclear export IDA 16209721
genes like me logo Genes that share ontologies with LSG1: view

No data available for SIGNOR curated interactions for LSG1 Gene

Drugs & Compounds for LSG1 Gene

(1) Drugs for LSG1 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Guanosine triphosphate Experimental Pharma 0
genes like me logo Genes that share compounds with LSG1: view

Transcripts for LSG1 Gene

mRNA/cDNA for LSG1 Gene

Unigene Clusters for LSG1 Gene

Large subunit GTPase 1 homolog (S. cerevisiae):
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for LSG1 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9a · 9b · 9c ^ 10a · 10b ^ 11a · 11b · 11c ^ 12a · 12b ^ 13 ^ 14 ^ 15
SP1: - - - -
SP2: - - - -
SP3: -
SP4: -
SP5:

Relevant External Links for LSG1 Gene

GeneLoc Exon Structure for
LSG1
ECgene alternative splicing isoforms for
LSG1

Expression for LSG1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LSG1 Gene

Protein differential expression in normal tissues from HIPED for LSG1 Gene

This gene is overexpressed in Lung (64.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for LSG1 Gene



Protein tissue co-expression partners for LSG1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of LSG1 Gene:

LSG1

SOURCE GeneReport for Unigene cluster for LSG1 Gene:

Hs.744061

Evidence on tissue expression from TISSUES for LSG1 Gene

  • Intestine(4.3)
  • Skin(4.2)
  • Nervous system(2.3)
genes like me logo Genes that share expression patterns with LSG1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for LSG1 Gene

Orthologs for LSG1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for LSG1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LSG1 34 33
  • 98.83 (n)
OneToOne
cow
(Bos Taurus)
Mammalia LSG1 34 33
  • 85.77 (n)
OneToOne
dog
(Canis familiaris)
Mammalia LSG1 34 33
  • 85.74 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Lsg1 33
  • 83.95 (n)
mouse
(Mus musculus)
Mammalia Lsg1 16 34 33
  • 82.56 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia LSG1 34
  • 72 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia LSG1 34
  • 58 (a)
OneToOne
chicken
(Gallus gallus)
Aves LSG1 34 33
  • 65.58 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia LSG1 34
  • 58 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lsg1 33
  • 67.71 (n)
Str.17244 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.7257 33
zebrafish
(Danio rerio)
Actinopterygii lsg1 34 33
  • 64.47 (n)
OneToOne
wufb99b06 33
fruit fly
(Drosophila melanogaster)
Insecta ns3 34 33
  • 55.39 (n)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP011471 33
  • 54.51 (n)
worm
(Caenorhabditis elegans)
Secernentea C53H9.2 34 33
  • 51.98 (n)
OneToOne
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AFL042C 33
  • 56.18 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes LSG1 36 34 33
  • 53.98 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0F06666g 33
  • 53.56 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT2G27200 33
  • 51.69 (n)
rice
(Oryza sativa)
Liliopsida Os12g0618300 33
  • 51.74 (n)
corn
(Zea mays)
Liliopsida Zm.15914 33
bread mold
(Neurospora crassa)
Ascomycetes NCU04166 33
  • 56.59 (n)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes SPAC3F10.16c 33
  • 54.43 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.5255 34
  • 51 (a)
OneToOne
Cin.8434 33
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.8434 33
Species where no ortholog for LSG1 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for LSG1 Gene

ENSEMBL:
Gene Tree for LSG1 (if available)
TreeFam:
Gene Tree for LSG1 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for LSG1: view image

Paralogs for LSG1 Gene

Paralogs for LSG1 Gene

genes like me logo Genes that share paralogs with LSG1: view

Variants for LSG1 Gene

Sequence variations from dbSNP and Humsavar for LSG1 Gene

SNP ID Clin Chr 03 pos Variation AA Info Type
rs1000021025 -- 194,647,258(-) T/C intron_variant
rs1000044771 -- 194,644,331(-) C/T intron_variant
rs1000075898 -- 194,644,035(-) GGGGG/GGGGGG intron_variant
rs1000112815 -- 194,671,733(-) T/A genic_upstream_transcript_variant, intron_variant
rs1000146158 -- 194,666,621(-) A/G genic_upstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for LSG1 Gene

Variant ID Type Subtype PubMed ID
dgv2673n106 CNV deletion 24896259
dgv8820n54 CNV loss 21841781
dgv8821n54 CNV gain 21841781
esv1145977 CNV deletion 17803354
esv2297678 CNV deletion 18987734
esv23345 CNV gain 19812545
esv2568026 CNV deletion 19546169
esv2726439 CNV deletion 23290073
esv2726441 CNV deletion 23290073
esv2726442 CNV deletion 23290073
esv2760807 CNV loss 21179565
esv2831681 CNV deletion 24192839
esv3563130 CNV deletion 23714750
esv3599208 CNV loss 21293372
esv6418 CNV loss 19470904
esv993455 CNV deletion 20482838
nsv1073275 CNV deletion 25765185
nsv1152520 CNV deletion 26484159
nsv237578 CNV deletion 16902084
nsv508268 CNV deletion 20534489
nsv513104 CNV loss 21212237
nsv519476 CNV gain 19592680
nsv526568 CNV gain 19592680
nsv821145 CNV deletion 20802225
nsv956264 CNV deletion 24416366

Variation tolerance for LSG1 Gene

Residual Variation Intolerance Score: 89.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.51; 64.62% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LSG1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LSG1

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LSG1 Gene

Disorders for LSG1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for LSG1 Gene - From: DISEASES

Disorder Aliases PubMed IDs
parasitic ectoparasitic infectious disease
  • ectoparasitism
- elite association - COSMIC cancer census association via MalaCards
Search LSG1 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for LSG1

genes like me logo Genes that share disorders with LSG1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LSG1 Gene

Publications for LSG1 Gene

  1. Toward a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PMID: 11230166) Wiemann S … Poustka A (Genome research 2001) 2 3 4 58
  2. Human Lsg1 defines a family of essential GTPases that correlates with the evolution of compartmentalization. (PMID: 16209721) Reynaud EG … Pepperkok R (BMC biology 2005) 3 4 58
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  4. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
  5. Temporal proteomics of NGF-TrkA signaling identifies an inhibitory role for the E3 ligase Cbl-b in neuroblastoma cell differentiation. (PMID: 25921289) Emdal KB … Olsen JV (Science signaling 2015) 3 58

Products for LSG1 Gene

Sources for LSG1 Gene

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