Human Gene LSG1 (ENST00000265245.10_8) from GENCODE V47lift37
  Description: large 60S subunit nuclear export GTPase 1 (from RefSeq NM_018385.3)
Gencode Transcript: ENST00000265245.10_8
Gencode Gene: ENSG00000041802.11_13
Transcript (Including UTRs)
   Position: hg19 chr3:194,361,520-194,392,920 Size: 31,401 Total Exon Count: 14 Strand: -
Coding Region
   Position: hg19 chr3:194,362,797-194,392,891 Size: 30,095 Coding Exon Count: 14 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:194,361,520-194,392,920)mRNA (may differ from genome)Protein (658 aa)
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WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: LSG1_HUMAN
DESCRIPTION: RecName: Full=Large subunit GTPase 1 homolog; Short=hLsg1; EC=3.6.1.-;
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).
SUBCELLULAR LOCATION: Cytoplasm. Endoplasmic reticulum. Nucleus, Cajal body. Note=Shuttles between the Cajal bodies in the nucleus and the endoplasmic reticulum.
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.
SIMILARITY: Belongs to the MMR1/HSR1 GTP-binding protein family. LSG1 subfamily.
SIMILARITY: Contains 1 G (guanine nucleotide-binding) domain.
SEQUENCE CAUTION: Sequence=AAH15042.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence; Sequence=AAH40119.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: LSG1
Diseases sorted by gene-association score: parasitic ectoparasitic infectious disease (2)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 14.33 RPKM in Skin - Sun Exposed (Lower leg)
Total median expression: 482.68 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -4.6029-0.159 Picture PostScript Text
3' UTR -397.801277-0.312 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR023179 - GTP-bd_ortho_bundle
IPR006073 - GTP_binding_domain

Pfam Domains:
PF01926 - 50S ribosome-binding GTPase

SCOP Domains:
52540 - P-loop containing nucleoside triphosphate hydrolases

ModBase Predicted Comparative 3D Structure on Q9H089
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologGenome BrowserGenome Browser
Gene DetailsGene Details Gene DetailsGene DetailsGene Details
Gene SorterGene Sorter Gene SorterGene SorterGene Sorter
 RGDEnsembl WormBaseSGD
    Protein SequenceProtein Sequence
    AlignmentAlignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0003924 GTPase activity
GO:0005525 GTP binding
GO:0016787 hydrolase activity

Biological Process:
GO:0015031 protein transport
GO:0042254 ribosome biogenesis
GO:0051168 nuclear export

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005783 endoplasmic reticulum
GO:0005829 cytosol
GO:0015030 Cajal body
GO:0016020 membrane
GO:0016604 nuclear body


-  Descriptions from all associated GenBank mRNAs
  AL136897 - Homo sapiens mRNA; cDNA DKFZp434E248 (from clone DKFZp434E248).
BC068500 - Homo sapiens large subunit GTPase 1 homolog (S. cerevisiae), mRNA (cDNA clone MGC:87237 IMAGE:30343878), complete cds.
AM392577 - Synthetic construct Homo sapiens clone IMAGE:100001647 for hypothetical protein (LSG1 gene).
AB463094 - Synthetic construct DNA, clone: pF1KB8659, Homo sapiens LSG1 gene for large subunit GTPase 1 homolog, without stop codon, in Flexi system.
AB527453 - Synthetic construct DNA, clone: pF1KB8659, Homo sapiens LSG1 gene for large subunit GTPase 1 homolog, without stop codon, in Flexi system.
BC040119 - Homo sapiens large subunit GTPase 1 homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:4399846), partial cds.
BC058891 - Homo sapiens large subunit GTPase 1 homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:6140492).
AK225094 - Homo sapiens mRNA for hypothetical protein LOC55341 variant, clone: CAS07156.
BC015042 - Homo sapiens large subunit GTPase 1 homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:3920630), partial cds.
AK002163 - Homo sapiens cDNA FLJ11301 fis, clone PLACE1009908, weakly similar to HYPOTHETICAL GTP-BINDING PROTEIN IN SEH1-PRP20 INTERGENIC REGION.
JD495864 - Sequence 476888 from Patent EP1572962.
JD200983 - Sequence 182007 from Patent EP1572962.
JD416107 - Sequence 397131 from Patent EP1572962.
JD460210 - Sequence 441234 from Patent EP1572962.
JD231843 - Sequence 212867 from Patent EP1572962.
JD233279 - Sequence 214303 from Patent EP1572962.
JD553968 - Sequence 534992 from Patent EP1572962.
DQ589294 - Homo sapiens piRNA piR-56406, complete sequence.
JD477982 - Sequence 459006 from Patent EP1572962.
JD481500 - Sequence 462524 from Patent EP1572962.
JD279133 - Sequence 260157 from Patent EP1572962.
JD285180 - Sequence 266204 from Patent EP1572962.
DQ571832 - Homo sapiens piRNA piR-31944, complete sequence.
JD232064 - Sequence 213088 from Patent EP1572962.
JD046356 - Sequence 27380 from Patent EP1572962.
JD410199 - Sequence 391223 from Patent EP1572962.
JD398183 - Sequence 379207 from Patent EP1572962.
DQ581265 - Homo sapiens piRNA piR-49377, complete sequence.
JD056710 - Sequence 37734 from Patent EP1572962.
JD066708 - Sequence 47732 from Patent EP1572962.
JD176501 - Sequence 157525 from Patent EP1572962.
JD205363 - Sequence 186387 from Patent EP1572962.
JD319956 - Sequence 300980 from Patent EP1572962.
JD040968 - Sequence 21992 from Patent EP1572962.
JD169048 - Sequence 150072 from Patent EP1572962.
JD112314 - Sequence 93338 from Patent EP1572962.
JD144598 - Sequence 125622 from Patent EP1572962.
JD542045 - Sequence 523069 from Patent EP1572962.
JD119094 - Sequence 100118 from Patent EP1572962.
JD542044 - Sequence 523068 from Patent EP1572962.
JD497510 - Sequence 478534 from Patent EP1572962.
JD053692 - Sequence 34716 from Patent EP1572962.
JD491635 - Sequence 472659 from Patent EP1572962.
JD102713 - Sequence 83737 from Patent EP1572962.
JD061566 - Sequence 42590 from Patent EP1572962.
AK130804 - Homo sapiens cDNA FLJ27294 fis, clone TMS03441.

-  Other Names for This Gene
  Alternate Gene Symbols: A0JLT4, A0PJK3, A6NI18, ENST00000265245.1, ENST00000265245.2, ENST00000265245.3, ENST00000265245.4, ENST00000265245.5, ENST00000265245.6, ENST00000265245.7, ENST00000265245.8, ENST00000265245.9, LSG1_HUMAN, NM_018385, Q7L9H8, Q9H089, Q9NUK8, uc317hzr.1, uc317hzr.2
UCSC ID: ENST00000265245.10_8
RefSeq Accession: NM_018385.3
Protein: Q9H089 (aka LSG1_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.