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Aliases for LSR Gene

Aliases for LSR Gene

  • Lipolysis Stimulated Lipoprotein Receptor 2 3 5
  • Immunoglobulin-Like Domain Containing Receptor 3 2 3
  • Lipolysis-Stimulated Remnant 2 3
  • Liver-Specific BHLH-Zip Transcription Factor 3
  • Lipolysis-Stimulated Lipoprotein Receptor 3
  • LISCH Protein 3
  • LISCH7 3
  • ILDR3 3
  • LISCH 4

External Ids for LSR Gene

Previous GeneCards Identifiers for LSR Gene

  • GC19P040432
  • GC19P035739
  • GC19P032248
  • GC19P035249
  • GC19P035250
  • GC19P036022

Summaries for LSR Gene

GeneCards Summary for LSR Gene

LSR (Lipolysis Stimulated Lipoprotein Receptor) is a Protein Coding gene. Diseases associated with LSR include Deafness, Autosomal Recessive 42 and Deafness, Autosomal Recessive 49. Among its related pathways are Lipoprotein metabolism and Metabolism. An important paralog of this gene is ILDR2.

UniProtKB/Swiss-Prot for LSR Gene

  • Probable role in the clearance of triglyceride-rich lipoprotein from blood. Binds chylomicrons, LDL and VLDL in presence of free fatty acids and allows their subsequent uptake in the cells (By similarity).

Gene Wiki entry for LSR Gene

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

Genomics for LSR Gene

Regulatory Elements for LSR Gene

Enhancers for LSR 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
GH19G035253 1.4 ENCODE dbSUPER 20.7 +5.7 5715 1.0 HDGF FOXA2 PKNOX1 CREB3L1 ARID4B SIN3A FEZF1 ZNF2 YY1 ZNF143 LSR FAM187B ZNF146 TMEM147-AS1 WTIP ENSG00000233214 FXYD3 ENSG00000267219 FFAR2 CD22
GH19G035246 1.5 ENCODE dbSUPER 18.6 +0.3 295 3.4 MLX CREB3L1 AGO1 ZFP64 DMAP1 YY1 SLC30A9 ZNF416 ZNF143 ZNF548 RBM42 TMEM147-AS1 HAUS5 KMT2B KIAA0355 ZNF792 LIN37 LSR ENSG00000267219 ENSG00000268947
GH19G035202 2 FANTOM5 Ensembl ENCODE dbSUPER 11.8 -42.8 -42789 6.1 DMAP1 YBX1 YY1 ZNF143 ZNF416 ZNF548 ZNF263 SP3 NFYC TBX21 TMEM147-AS1 RBM42 ZNF792 KIAA0355 HAUS5 KMT2B LRFN3 FXYD5 ENSG00000267049 ENSG00000271049
GH19G035266 1.4 ENCODE dbSUPER 16.6 +20.1 20131 4.2 CREB3L1 AGO1 DMAP1 YY1 ZNF143 ZNF548 ZNF263 SP3 NFYC ZFP41 ZNF565 ZNF146 HAUS5 RBM42 TMEM147-AS1 LSR ZNF792 KMT2B FAM187B2P LIN37
GH19G035255 1.2 ENCODE dbSUPER 18.4 +7.2 7225 1.5 HDAC1 ELF3 ATF1 CREB3L1 KLF17 INSM2 ARID4B SIN3A BMI1 ZNF2 LSR MAG FAM187B ENSG00000233214 FXYD3 FFAR2 ENSG00000271366 LOC105372380
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around LSR on UCSC Golden Path with GeneCards custom track

Promoters for LSR Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000108980 470 2001 MLX CREB3L1 AGO1 ZFP64 DMAP1 YY1 SLC30A9 ZNF416 ZNF143 ZNF548

Genomic Location for LSR Gene

Chromosome:
19
Start:
35,248,330 bp from pter
End:
35,267,964 bp from pter
Size:
19,635 bases
Orientation:
Plus strand

Genomic View for LSR Gene

Genes around LSR on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for LSR Gene

Proteins for LSR Gene

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

    Protein Symbol:
    Q86X29-LSR_HUMAN
    Recommended name:
    Lipolysis-stimulated lipoprotein receptor
    Protein Accession:
    Q86X29
    Secondary Accessions:
    • A6NDW3
    • B4DKL4
    • E9PHD4
    • O00112
    • O00426
    • Q6ZT80
    • Q8NBM0
    • Q9BT33
    • Q9UQL3

    Protein attributes for LSR Gene

    Size:
    649 amino acids
    Molecular mass:
    71439 Da
    Quaternary structure:
    • Homotrimer or homotetramer.
    SequenceCaution:
    • Sequence=AAB51178.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305}; Sequence=AAB58317.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305}; Sequence=AAH04381.2; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Alternative splice isoforms for LSR Gene

neXtProt entry for LSR Gene

Post-translational modifications for LSR Gene

  • Ubiquitination at posLast=410410
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for LSR Gene

Domains & Families for LSR Gene

Gene Families for LSR Gene

Protein Domains for LSR Gene

Graphical View of Domain Structure for InterPro Entry

Q86X29

UniProtKB/Swiss-Prot:

LSR_HUMAN :
  • Belongs to the immunoglobulin superfamily. LISCH7 family.
Family:
  • Belongs to the immunoglobulin superfamily. LISCH7 family.
genes like me logo Genes that share domains with LSR: view

Function for LSR Gene

Molecular function for LSR Gene

UniProtKB/Swiss-Prot Function:
Probable role in the clearance of triglyceride-rich lipoprotein from blood. Binds chylomicrons, LDL and VLDL in presence of free fatty acids and allows their subsequent uptake in the cells (By similarity).
genes like me logo Genes that share phenotypes with LSR: view

Animal Models for LSR Gene

MGI Knock Outs for LSR:

Animal Model Products

  • Taconic Biosciences Mouse Models for LSR

CRISPR Products

miRNA for LSR Gene

miRTarBase miRNAs that target LSR

Inhibitory RNA Products

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

Localization for LSR Gene

Subcellular locations from UniProtKB/Swiss-Prot for LSR Gene

Cell membrane; Single-pass membrane protein.

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 LSR gene
Compartment Confidence
extracellular 5
plasma membrane 4
nucleus 3
cytosol 3
mitochondrion 1
peroxisome 1
endoplasmic reticulum 1
lysosome 1

Gene Ontology (GO) - Cellular Components for LSR Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane ISS,TAS --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0034361 very-low-density lipoprotein particle IEA --
GO:0034362 low-density lipoprotein particle IEA --
genes like me logo Genes that share ontologies with LSR: view

Pathways & Interactions for LSR Gene

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

Pathways by source for LSR Gene

Gene Ontology (GO) - Biological Process for LSR Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001889 liver development ISS --
GO:0006898 receptor-mediated endocytosis TAS --
GO:0019216 regulation of lipid metabolic process IEA --
GO:0042157 lipoprotein metabolic process TAS --
GO:0060856 establishment of blood-brain barrier IEA --
genes like me logo Genes that share ontologies with LSR: view

No data available for SIGNOR curated interactions for LSR Gene

Drugs & Compounds for LSR Gene

(1) Drugs for LSR Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(1) Additional Compounds for LSR Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with LSR: view

Transcripts for LSR Gene

Unigene Clusters for LSR Gene

Lipolysis stimulated lipoprotein receptor:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

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

ExUns: 1a · 1b · 1c · 1d ^ 2a · 2b · 2c · 2d ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11a · 11b ^ 12 ^ 13
SP1: -
SP2: - -
SP3: - -
SP4: - - - -
SP5: - - -
SP6: - - -
SP7: - - - -
SP8:
SP9: - - - -

Relevant External Links for LSR Gene

GeneLoc Exon Structure for
LSR
ECgene alternative splicing isoforms for
LSR

Expression for LSR Gene

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

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

This gene is overexpressed in Liver (x6.1), Colon - Transverse (x4.9), and Pancreas (x4.3).

Protein differential expression in normal tissues from HIPED for LSR Gene

This gene is overexpressed in Pancreas (16.1), Islet of Langerhans (14.1), and Testis (7.2).

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



NURSA nuclear receptor signaling pathways regulating expression of LSR Gene:

LSR

SOURCE GeneReport for Unigene cluster for LSR Gene:

Hs.466507

Evidence on tissue expression from TISSUES for LSR Gene

  • Intestine(4.7)
  • Liver(4.5)
  • Nervous system(4.4)
  • Pancreas(4.3)
  • Stomach(2.5)
genes like me logo Genes that share expression patterns with LSR: view

Primer Products

No data available for Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for LSR Gene

Orthologs for LSR Gene

This gene was present in the common ancestor of chordates.

Orthologs for LSR Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LSR 34 35
  • 99.18 (n)
dog
(Canis familiaris)
Mammalia LSR 34 35
  • 85.59 (n)
cow
(Bos Taurus)
Mammalia LSR 34 35
  • 84.66 (n)
mouse
(Mus musculus)
Mammalia Lsr 34 16 35
  • 80.94 (n)
rat
(Rattus norvegicus)
Mammalia Lsr 34
  • 80.8 (n)
oppossum
(Monodelphis domestica)
Mammalia LSR 35
  • 63 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia LSR 35
  • 63 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia LSR 35
  • 54 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lsr 34
  • 60.04 (n)
Str.15753 34
zebrafish
(Danio rerio)
Actinopterygii lsr 34 35
  • 55.64 (n)
Species where no ortholog for LSR 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)
  • 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)
  • 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 (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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for LSR Gene

ENSEMBL:
Gene Tree for LSR (if available)
TreeFam:
Gene Tree for LSR (if available)

Paralogs for LSR Gene

Paralogs for LSR Gene

(1) SIMAP similar genes for LSR Gene using alignment to 7 proteins:

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

Variants for LSR Gene

Sequence variations from dbSNP and Humsavar for LSR Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type
rs1000259836 -- 35,248,429(+) CGGGT(A/C)CATCG upstream-variant-2KB
rs1000386752 -- 35,251,828(+) GCAGC(C/T)CTGAG intron-variant
rs1000549916 -- 35,258,639(+) GCTCC(A/G)AGGGC intron-variant, upstream-variant-2KB
rs1000617993 -- 35,257,504(+) TGAGG(A/C)CTTCC intron-variant, upstream-variant-2KB
rs1000871716 -- 35,247,082(+) TACAT(A/G)CAATG upstream-variant-2KB

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

Variant ID Type Subtype PubMed ID
esv2665499 CNV deletion 23128226
esv2758758 CNV loss 17122850
esv27788 CNV loss 19812545
esv3644228 CNV gain 21293372
esv3644232 CNV loss 21293372
nsv1066553 CNV gain 25217958
nsv510765 CNV deletion 20534489
nsv953283 CNV deletion 24416366

Variation tolerance for LSR Gene

Residual Variation Intolerance Score: 14.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.12; 75.59% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LSR Gene

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

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

Disorders for LSR Gene

MalaCards: The human disease database

(2) MalaCards diseases for LSR Gene - From: DISEASES

Disorder Aliases PubMed IDs
deafness, autosomal recessive 42
  • autosomal recessive nonsyndromic deafness 42
deafness, autosomal recessive 49
  • autosomal recessive nonsyndromic deafness 49
- elite association - COSMIC cancer census association via MalaCards
Search LSR in MalaCards View complete list of genes associated with diseases

Relevant External Links for LSR

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LSR
genes like me logo Genes that share disorders with LSR: view

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

Publications for LSR Gene

  1. Signal sequence and keyword trap in silico for selection of full- length human cDNAs encoding secretion or membrane proteins from oligo- capped cDNA libraries. (PMID: 16303743) Otsuki T. … Isogai T. (DNA Res. 2005) 3 4 64
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  3. The DNA sequence and biology of human chromosome 19. (PMID: 15057824) Grimwood J. … Lucas S.M. (Nature 2004) 3 4 64
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  5. Molecular cloning of a lipolysis-stimulated remnant receptor expressed in the liver. (PMID: 10224102) Yen F.T. … Bihain B.E. (J. Biol. Chem. 1999) 2 3 64

Products for LSR Gene

Sources for LSR Gene

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