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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

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

No data available for 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
GH06F031556 1.7 FANTOM5 Ensembl ENCODE 14.4 -26.0 -25992 8.3 HDGF PKNOX1 ARNT WRNIP1 ZNF2 ZNF207 FOS KLF13 ZNF263 PAF1 TNF ATP6V1G2 MICB CSNK2B DDX39B LST1 NCR3 UQCRHP1 AIF1 LTB
GH06F031567 1.8 FANTOM5 Ensembl ENCODE 6.5 -7.9 -7854 22.5 MLX CREB3L1 ZFP64 FEZF1 DMAP1 YBX1 YY1 SLC30A9 ZNF143 ZNF548 DDX39B TNF LY6G5B DHX16 ATF6B LSM2 MICA TCF19 C6orf47 PPT2
GH06F031614 0.9 ENCODE 12.4 +29.7 29737 3.6 ELF3 HDGF TBP HDAC1 ZNF121 ETV6 CREM TBX21 KAT8 SP1 BAG6 LY6G5B HLA-DRB1 SKIV2L LY6G5C LST1 LTB C4A DDX39B DDX39B-AS1
GH06F031596 1.3 Ensembl ENCODE 7.6 +11.6 11585 2.6 PKNOX1 ATF1 ARNT ARID4B FEZF1 ZNF48 ZNF2 YY1 ZNF143 ZNF263 MICB BAG6 C4A GPANK1 DDX39B DHX16 VARS CSNK2B MICA LST1
GH06F031591 1.2 Ensembl ENCODE 6.9 +7.0 6958 2.3 HDGF ZNF143 KLF13 ZNF263 PAF1 MCM3 JUNB TBX21 SMARCA4 MYNN DDX39B ATP6V1G2 LOC101929072 ENSG00000271581 LST1 MICB HLA-C SKIV2L 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

Promoters for LST1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001032044 1476 1201 HDGF USF1 MAX YBX1 ZNF791 ZNF366 EED ETV6 ZBTB10 YY2

Genomic Location for LST1 Gene

Chromosome:
6
Start:
31,586,124 bp from pter
End:
31,588,909 bp from pter
Size:
2,786 bases
Orientation:
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:
    O00453-LST1_HUMAN
    Recommended name:
    Leukocyte-specific transcript 1 protein
    Protein Accession:
    O00453
    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

    Size:
    97 amino acids
    Molecular mass:
    10792 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • 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

Protein Domains for LST1 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for LST1 Gene

Graphical View of Domain Structure for InterPro Entry

O00453

UniProtKB/Swiss-Prot:

LST1_HUMAN :
  • Belongs to the LST1 family.
Family:
  • Belongs to the LST1 family.
genes like me logo Genes that share domains with LST1: view

No data available for Gene Families for LST1 Gene

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 for LST1 Gene

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

Animal Model Products

  • Taconic Biosciences Mouse Models for LST1

Inhibitory RNA Products

Clone Products

Flow Cytometry 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

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 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

Pathways & Interactions for LST1 Gene

No Data Available

Interacting Proteins for LST1 Gene

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 IEA,NAS 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 211
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:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

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

No ASD Table

Relevant External Links for LST1 Gene

GeneLoc Exon Structure for
LST1
ECgene alternative splicing isoforms for
LST1

Expression for LST1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and 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:

LST1

SOURCE GeneReport for Unigene cluster for LST1 Gene:

Hs.436066

mRNA Expression by UniProt/SwissProt for LST1 Gene:

O00453-LST1_HUMAN
Tissue specificity: Expressed in lung, tonsil, thymus, placenta, kidney, fetal spleen, fetal liver and brain.
genes like me logo Genes that share expression patterns with LST1: view

Primer Products

Orthologs for LST1 Gene

This gene was present in the common ancestor of mammals.

Orthologs for LST1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LST1 34
  • 99.31 (n)
dog
(Canis familiaris)
Mammalia LST1 35
  • 77 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Lst1 35
  • 53 (a)
OneToOne
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

ENSEMBL:
Gene Tree for LST1 (if available)
TreeFam:
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
rs1052248 -- 31,588,804(+) TCAAA(A/T)TGATC nc-transcript-variant, downstream-variant-500B, utr-variant-3-prime
rs111261815 -- 31,585,657(+) AGAGC(C/T)TCAGG upstream-variant-2KB
rs111584793 -- 31,587,995(+) GGAGG(A/G)CAAGA intron-variant
rs112057928 -- 31,585,679(+) ACTTA(A/G)TTCTG upstream-variant-2KB
rs112242391 -- 31,588,280(+) TCATT(C/T)CAGCT intron-variant

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)
LST1
SNPedia medical, phenotypic, and genealogical associations of SNPs for
LST1

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)
LST1
Human Genome Epidemiology (HuGE) Navigator
LST1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LST1

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 64
  2. LST1: a gene with extensive alternative splicing and immunomodulatory function. (PMID: 10706707) Rollinger-Holzinger I. … Zwierzina H. (J. Immunol. 2000) 3 4 22 64
  3. Complex expression pattern of the TNF region gene LST1 through differential regulation, initiation, and alternative splicing. (PMID: 9367684) de Baey A. … Weiss E.H. (Genomics 1997) 2 3 4 64
  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 S.D. … Anand S. (Diabetes Care 2010) 3 46 64
  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 46 64

Products for LST1 Gene

Sources for LST1 Gene

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