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Aliases for LST1 Gene

Aliases for LST1 Gene

  • Leukocyte Specific Transcript 1 2 3 5
  • B144 3 4
  • Leukocyte-Specific Transcript 1 Protein 3
  • Lymphocyte Antigen 117 3
  • Protein B144 4
  • D6S49E 3
  • LST-1 3

External Ids for LST1 Gene

Previous GeneCards Identifiers for LST1 Gene

  • GC06P031617
  • GC06P031324
  • GC06P031658
  • GC06P031661
  • GC06P031556
  • GC06P031557
  • GC06P031340
  • GC06P031558
  • GC06P031568
  • GC06P031718
  • GC06P031760
  • GC06P031615
  • GC06P031625
  • GC06P031630
  • GC06P031643
  • GC06P031659
  • GC06P031669

Summaries for LST1 Gene

Entrez Gene Summary for LST1 Gene

  • The protein encoded by this gene is a membrane protein that can inhibit the proliferation of lymphocytes. Expression of this gene is enhanced by lipopolysaccharide, interferon-gamma, and bacteria. Several transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Oct 2011]

GeneCards Summary for LST1 Gene

LST1 (Leukocyte Specific Transcript 1) is a Protein Coding gene.

UniProtKB/Swiss-Prot for LST1 Gene

  • Possible role in modulating immune responses. Induces morphological changes including production of filopodia and microspikes when overexpressed in a variety of cell types and may be involved in dendritic cell maturation. Isoform 1 and isoform 2 have an inhibitory effect on lymphocyte proliferation.

Gene Wiki entry for LST1 Gene

Additional gene information for LST1 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LST1 Gene

Genomics for LST1 Gene

Regulatory Elements for LST1 Gene

Enhancers for LST1 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
GH06H031557 1.3 Ensembl ENCODE 13.2 -26.5 -26534 4.2 HDGF ATF1 TCF12 ELK1 ZNF143 ZNF207 ATF7 RUNX3 JUNB REST CSNK2B DDX39B LST1 NCR3 UQCRHP1 AIF1 LTB SNORD117 PSORS1C2 C6orf47
GH06H031614 1.2 Ensembl ENCODE 12.4 +29.7 29711 3.7 HDAC1 ELF3 HDGF ZNF121 ATF7 ETV6 RUNX3 CREM IKZF2 ELF1 BAG6 LY6G5B HLA-DRB1 SKIV2L LY6G5C LST1 LTB C4A DDX39B DDX39B-AS1
GH06H031596 1 Ensembl ENCODE 7.6 +11.1 11056 0.5 HDAC1 CTCF PKNOX1 ATF1 SAP130 ARNT ZMYM3 MAX ZNF2 RAD21 DDX39B LST1 MICB NCR3 UQCRHP1
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around LST1 on UCSC Golden Path with GeneCards custom track

Genomic Locations for LST1 Gene

Genomic Locations for LST1 Gene
2,786 bases
Plus strand

Genomic View for LST1 Gene

Genes around LST1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LST1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LST1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

Proteins for LST1 Gene

  • Protein details for LST1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Leukocyte-specific transcript 1 protein
    Protein Accession:
    Secondary Accessions:
    • B0S8E0
    • B0S8E1
    • B0S8E5
    • O00452
    • O00454
    • Q13669
    • Q2HNT3
    • Q5HYS9
    • Q5SP24
    • Q5STA5
    • Q5STA6
    • Q5STA7
    • Q5STA8
    • Q5STW6
    • Q9UJR5
    • Q9UJR6
    • Q9UJR7
    • Q9UJR8
    • Q9UJS1

    Protein attributes for LST1 Gene

    97 amino acids
    Molecular mass:
    10792 Da
    Quaternary structure:
    No Data Available
    • Sequence=AAX45332.1; Type=Erroneous termination; Positions=47; Note=Translated as Gln.; Evidence={ECO:0000305};

    Alternative splice isoforms for LST1 Gene

neXtProt entry for LST1 Gene

Post-translational modifications for LST1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for LST1 Gene

Domains & Families for LST1 Gene

Gene Families for LST1 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted membrane proteins
  • Predicted secreted proteins

Protein Domains for LST1 Gene


Suggested Antigen Peptide Sequences for LST1 Gene

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the LST1 family.
  • Belongs to the LST1 family.
genes like me logo Genes that share domains with LST1: view

Function for LST1 Gene

Molecular function for LST1 Gene

GENATLAS Biochemistry:
leukocyte specific transcript 1,with several alternatively spliced isoforms,homolog of the mouse B144 transcript,predominantly expressed in monocytes
UniProtKB/Swiss-Prot Function:
Possible role in modulating immune responses. Induces morphological changes including production of filopodia and microspikes when overexpressed in a variety of cell types and may be involved in dendritic cell maturation. Isoform 1 and isoform 2 have an inhibitory effect on lymphocyte proliferation.
UniProtKB/Swiss-Prot Induction:
By IFNG/IFN-gamma. Up-regulated upon autoimmune and bacterially-induced inflammation.

Phenotypes From GWAS Catalog for LST1 Gene

Phenotypes for LST1 Gene

genes like me logo Genes that share phenotypes with LST1: view

Clone Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for LST1 Gene

Localization for LST1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LST1 Gene

Membrane; Single-pass membrane protein. Golgi apparatus membrane; Single-pass membrane protein. Endomembrane system; Single-pass membrane protein. Note=Also detected in a perinuclear region corresponding to the localization of the Golgi apparatus and throughout the cytoplasm.

Subcellular locations from

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 LST1 gene
Compartment Confidence
extracellular 3
nucleus 2

Gene Ontology (GO) - Cellular Components for LST1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane IEA --
GO:0005737 cytoplasm IDA 11478849
GO:0005794 Golgi apparatus NAS 11478849
GO:0012505 endomembrane system IEA --
GO:0016020 membrane IEA --
genes like me logo Genes that share ontologies with LST1: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for LST1 Gene

Pathways & Interactions for LST1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LST1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000902 cell morphogenesis IEA --
GO:0002376 immune system process IEA --
GO:0006955 immune response NAS,IEA 7590964
GO:0008360 regulation of cell shape IEA --
GO:0009653 anatomical structure morphogenesis NAS 10944527
genes like me logo Genes that share ontologies with LST1: view

No data available for Pathways by source and SIGNOR curated interactions for LST1 Gene

Drugs & Compounds for LST1 Gene

(1) Drugs for LST1 Gene - From: PharmGKB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Abacavir Approved, Investigational Pharma 219
genes like me logo Genes that share compounds with LST1: view

Transcripts for LST1 Gene

Unigene Clusters for LST1 Gene

Leukocyte specific transcript 1:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for LST1 Gene

No ASD Table

Relevant External Links for LST1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for LST1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LST1 Gene

mRNA differential expression in normal tissues according to GTEx for LST1 Gene

This gene is overexpressed in Whole Blood (x33.4) and Spleen (x6.0).

Protein differential expression in normal tissues from HIPED for LST1 Gene

This gene is overexpressed in Urine (36.9), Monocytes (17.5), and Peripheral blood mononuclear cells (12.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for LST1 Gene

Protein tissue co-expression partners for LST1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of LST1 Gene:


SOURCE GeneReport for Unigene cluster for LST1 Gene:


mRNA Expression by UniProt/SwissProt for LST1 Gene:

Tissue specificity: Expressed in lung, tonsil, thymus, placenta, kidney, fetal spleen, fetal liver and brain.

Evidence on tissue expression from TISSUES for LST1 Gene

  • Bone marrow(2.2)
  • Spleen(2)
genes like me logo Genes that share expression patterns with LST1: view

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for LST1 Gene

Orthologs for LST1 Gene

This gene was present in the common ancestor of mammals.

Orthologs for LST1 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia LST1 33
  • 99.31 (n)
(Canis familiaris)
Mammalia LST1 34
  • 77 (a)
(Mus musculus)
Mammalia Lst1 34
  • 53 (a)
Species where no ortholog for LST1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • cow (Bos Taurus)
  • 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)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • 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)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for LST1 Gene

Gene Tree for LST1 (if available)
Gene Tree for LST1 (if available)

Paralogs for LST1 Gene

No data available for Paralogs for LST1 Gene

Variants for LST1 Gene

Sequence variations from dbSNP and Humsavar for LST1 Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs1000228388 -- 31,588,957(+) CAGGG(A/G)CCCAA downstream-variant-500B, utr-variant-3-prime
rs1000791610 -- 31,587,071(+) GGCAA(C/T)GGGCA intron-variant, upstream-variant-2KB
rs1001966262 -- 31,586,604(+) GAGAA(C/T)GGCCC intron-variant, upstream-variant-2KB
rs1002410742 -- 31,586,819(+) TGATA(C/T)CACCC intron-variant, upstream-variant-2KB
rs1003587055 -- 31,584,601(+) GAAAC(A/C)CCTTC upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for LST1 Gene

Variant ID Type Subtype PubMed ID
nsv830627 CNV loss 17160897
nsv1126749 CNV deletion 24896259
nsv1112900 CNV deletion 24896259
nsv1073969 CNV deletion 25765185
dgv10404n54 CNV loss 21841781
dgv10403n54 CNV loss 21841781

Variation tolerance for LST1 Gene

Residual Variation Intolerance Score: 85.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.94; 59.67% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LST1 Gene

Human Gene Mutation Database (HGMD)
SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LST1 Gene

Disorders for LST1 Gene

Relevant External Links for LST1

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for LST1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LST1 Gene

Publications for LST1 Gene

  1. LST1 and NCR3 expression in autoimmune inflammation and in response to IFN-gamma, LPS and microbial infection. (PMID: 16362817) Mulcahy H … O'Gara F (Immunogenetics 2006) 3 4 22 60
  2. LST1: a gene with extensive alternative splicing and immunomodulatory function. (PMID: 10706707) Rollinger-Holzinger I … Zwierzina H (Journal of immunology (Baltimore, Md. : 1950) 2000) 3 4 22 60
  3. Complex expression pattern of the TNF region gene LST1 through differential regulation, initiation, and alternative splicing. (PMID: 9367684) de Baey A … Weiss EH (Genomics 1997) 2 3 4 60
  4. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PMID: 20628086) Bailey SD … DREAM investigators (Diabetes care 2010) 3 45 60
  5. A strong genetic association between the tumor necrosis factor locus and proliferative vitreoretinopathy: the retina 4 project. (PMID: 20663564) Rojas J … Carracedo A (Ophthalmology 2010) 3 45 60

Products for LST1 Gene

Sources for LST1 Gene

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