Free for academic non-profit institutions. Other users need a Commercial license

Aliases for SLN Gene

Aliases for SLN Gene

  • Sarcolipin 2 3 3 5

External Ids for SLN Gene

Previous GeneCards Identifiers for SLN Gene

  • GC11M109772
  • GC11M108934
  • GC11M107612
  • GC11M107115
  • GC11M107083
  • GC11M103503

Summaries for SLN Gene

Entrez Gene Summary for SLN Gene

  • Sarcoplasmic reticulum Ca(2+)-ATPases are transmembrane proteins that catalyze the ATP-dependent transport of Ca(2+) from the cytosol into the lumen of the sarcoplasmic reticulum in muscle cells. This gene encodes a small proteolipid that regulates several sarcoplasmic reticulum Ca(2+)-ATPases. The transmembrane protein interacts with Ca(2+)-ATPases and reduces the accumulation of Ca(2+) in the sarcoplasmic reticulum without affecting the rate of ATP hydrolysis. [provided by RefSeq, Jul 2008]

GeneCards Summary for SLN Gene

SLN (Sarcolipin) is a Protein Coding gene. Diseases associated with SLN include Familial Atrial Fibrillation. Among its related pathways are Cardiac conduction and Ion channel transport. Gene Ontology (GO) annotations related to this gene include ATPase binding and enzyme regulator activity.

UniProtKB/Swiss-Prot for SLN Gene

  • Reversibly inhibits the activity of ATP2A1 in sarcoplasmic reticulum by decreasing the apparent affinity of the ATPase for Ca(2+). Modulates calcium re-uptake during muscle relaxation and plays an important role in calcium homeostasis in muscle. Required for muscle-based, non-shivering thermogenesis (By similarity).

Gene Wiki entry for SLN Gene

Additional gene information for SLN Gene

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

Genomics for SLN Gene

GeneHancer (GH) Regulatory Elements for SLN Gene

Promoters and enhancers for SLN 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
GH11I107708 Promoter/Enhancer 1.4 EPDnew ENCODE dbSUPER 559.1 +8.5 8526 4.5 ZSCAN4 OVOL3 EBF1 DPF2 ZNF217 ZFHX2 POLR2A IKZF1 ZNF239 HMBOX1 SLN ELMOD1 ENSG00000254758
GH11I107718 Enhancer 0.7 ENCODE dbSUPER 559.7 -1.5 -1522 4.6 GATA3 POLR2A ZNF416 WT1 SLN DDX10 NPAT SLC35F2 LOC203930
GH11I107695 Enhancer 1.1 Ensembl ENCODE dbSUPER 12.3 +23.3 23329 2.1 JUN ZBTB40 RFX5 FOSL1 ZNF366 POLR2A FOSL2 FOS SMARCE1 EP300 SLN ALKBH8 ELMOD1 SLC35F2 ENSG00000254758
GH11I107742 Enhancer 0.6 ENCODE dbSUPER 18.1 -24.1 -24113 2.7 CTCF POLR2A SLN ELMOD1 LOC203930 RPLP2P3
GH11I107741 Enhancer 0.9 ENCODE dbSUPER 11.8 -21.5 -21524 0 CTCF SMAD1 RB1 NFIB ZNF2 RAD21 LCORL ZNF766 ZNF143 BCLAF1 SLN ELMOD1 LOC203930 RPLP2P3
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SLN on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SLN gene promoter:

Genomic Locations for SLN Gene

Genomic Locations for SLN Gene
chr11:107,707,375-107,719,693
(GRCh38/hg38)
Size:
12,319 bases
Orientation:
Minus strand
chr11:107,578,101-107,590,419
(GRCh37/hg19)

Genomic View for SLN Gene

Genes around SLN on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for SLN Gene

Proteins for SLN Gene

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

    Protein Symbol:
    O00631-SARCO_HUMAN
    Recommended name:
    Sarcolipin
    Protein Accession:
    O00631
    Secondary Accessions:
    • Q6ICV3

    Protein attributes for SLN Gene

    Size:
    31 amino acids
    Molecular mass:
    3762 Da
    Quaternary structure:
    • Interacts with calcium ATPase ATP2A1/SERCA1.

    Three dimensional structures from OCA and Proteopedia for SLN Gene

neXtProt entry for SLN Gene

Post-translational modifications for SLN Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SLN Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SLN Gene

Domains & Families for SLN Gene

Gene Families for SLN Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins
  • Transporters

Protein Domains for SLN Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for SLN Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O00631

UniProtKB/Swiss-Prot:

SARCO_HUMAN :
  • Belongs to the sarcolipin family.
Family:
  • Belongs to the sarcolipin family.
genes like me logo Genes that share domains with SLN: view

Function for SLN Gene

Molecular function for SLN Gene

GENATLAS Biochemistry:
sarcolipin,low molecular weight proteolipid associated with the fast-twitch skeletal muscle sarcoplasmic reticulum Ca++ ATPase (ATP2A1),phospholamban homolog
UniProtKB/Swiss-Prot Function:
Reversibly inhibits the activity of ATP2A1 in sarcoplasmic reticulum by decreasing the apparent affinity of the ATPase for Ca(2+). Modulates calcium re-uptake during muscle relaxation and plays an important role in calcium homeostasis in muscle. Required for muscle-based, non-shivering thermogenesis (By similarity).

Gene Ontology (GO) - Molecular Function for SLN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004857 enzyme inhibitor activity ISS 12032137
GO:0005515 protein binding IPI 25416956
GO:0030234 enzyme regulator activity IEA --
GO:0051117 ATPase binding ISS 12032137
genes like me logo Genes that share ontologies with SLN: view
genes like me logo Genes that share phenotypes with SLN: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for SLN Gene

Localization for SLN Gene

Subcellular locations from UniProtKB/Swiss-Prot for SLN Gene

Sarcoplasmic reticulum membrane; Single-pass membrane protein. Endoplasmic reticulum 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 SLN gene
Compartment Confidence
endoplasmic reticulum 5
extracellular 3
plasma membrane 1
cytosol 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for SLN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005783 endoplasmic reticulum IEA --
GO:0005789 endoplasmic reticulum membrane IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane NAS 9367679
GO:0016529 sarcoplasmic reticulum IEA,IDA 9575189
genes like me logo Genes that share ontologies with SLN: view

Pathways & Interactions for SLN Gene

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

Pathways by source for SLN Gene

Gene Ontology (GO) - Biological Process for SLN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006816 calcium ion transport NAS 9367679
GO:0043086 negative regulation of catalytic activity ISS 12032137
GO:0043242 negative regulation of protein complex disassembly ISS 12032137
GO:0051924 regulation of calcium ion transport ISS --
GO:0070296 sarcoplasmic reticulum calcium ion transport IBA,ISS --
genes like me logo Genes that share ontologies with SLN: view

No data available for SIGNOR curated interactions for SLN Gene

Drugs & Compounds for SLN Gene

(8) Drugs for SLN Gene - From: ClinicalTrials, HMDB, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
calcium Approved Nutra 0
Methylene blue Approved, Investigational Pharma 111
Anesthetics Pharma 10650
Cariostatic Agents Pharma 368
Fluorophosphate Pharma 61

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

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

Transcripts for SLN Gene

mRNA/cDNA for SLN Gene

Unigene Clusters for SLN Gene

Sarcolipin:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

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

No ASD Table

Relevant External Links for SLN Gene

GeneLoc Exon Structure for
SLN
ECgene alternative splicing isoforms for
SLN

Expression for SLN Gene

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

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

This gene is overexpressed in Muscle - Skeletal (x37.0) and Heart - Atrial Appendage (x13.1).

NURSA nuclear receptor signaling pathways regulating expression of SLN Gene:

SLN

SOURCE GeneReport for Unigene cluster for SLN Gene:

Hs.334629

Evidence on tissue expression from TISSUES for SLN Gene

  • Muscle(4.9)
  • Nervous system(4.2)
  • Heart(3.1)
  • Stomach(2.2)
genes like me logo Genes that share expression patterns with SLN: view

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

Orthologs for SLN Gene

This gene was present in the common ancestor of human and chimp.

Orthologs for SLN Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SLN 34
  • 100 (a)
OneToOne
Species where no ortholog for SLN 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)
  • dog (Canis familiaris)
  • 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)
  • mouse (Mus musculus)
  • 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 SLN Gene

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

Paralogs for SLN Gene

No data available for Paralogs for SLN Gene

Variants for SLN Gene

Sequence variations from dbSNP and Humsavar for SLN Gene

SNP ID Clin Chr 11 pos Variation AA Info Type
rs1000037969 -- 107,709,604(-) T/A intron_variant
rs1000411841 -- 107,709,913(-) T/C intron_variant
rs1000818378 -- 107,709,838(-) C/T intron_variant
rs1001147919 -- 107,711,708(-) T/C intron_variant
rs1001456574 -- 107,711,323(-) A/G intron_variant

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

Variant ID Type Subtype PubMed ID
dgv1274n100 CNV gain 25217958
dgv1275n100 CNV gain 25217958
dgv1276n100 CNV gain 25217958
dgv230e214 CNV gain 21293372
esv2750979 CNV gain 17911159
nsv1052198 CNV gain 25217958

Variation tolerance for SLN Gene

Residual Variation Intolerance Score: 69.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.01; 0.26% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SLN Gene

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

SNP Genotyping and Copy Number Assay Products

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

Disorders for SLN Gene

MalaCards: The human disease database

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

Disorder Aliases PubMed IDs
familial atrial fibrillation
  • atrial fibrillation, familial, 1
- elite association - COSMIC cancer census association via MalaCards
Search SLN in MalaCards View complete list of genes associated with diseases

Additional Disease Information for SLN

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with SLN: view

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

Publications for SLN Gene

  1. Characterization of the gene encoding human sarcolipin (SLN), a proteolipid associated with SERCA1: absence of structural mutations in five patients with Brody disease. (PMID: 9367679) Odermatt A … MacLennan DH (Genomics 1997) 2 3 4 22 58
  2. The variation of the sarcolipin gene (SLN) in atrial fibrillation, long QT syndrome and sudden arrhythmic death syndrome. (PMID: 17010328) Nyberg MT … Christiansen M (Clinica chimica acta; international journal of clinical chemistry 2007) 3 22 44 58
  3. Structure and orientation of sarcolipin in lipid environments. (PMID: 11781085) Mascioni A … Veglia G (Biochemistry 2002) 3 4 22 58
  4. Sarcolipin regulates the activity of SERCA1, the fast-twitch skeletal muscle sarcoplasmic reticulum Ca2+-ATPase. (PMID: 9575189) Odermatt A … MacLennan DH (The Journal of biological chemistry 1998) 3 4 22 58
  5. 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 44 58

Products for SLN Gene

Sources for SLN Gene

Content
Loading form....