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Aliases for SCLY Gene

Aliases for SCLY Gene

  • Selenocysteine Lyase 2 3 5
  • EC 4 56
  • HSCL 3 4
  • SCL 3 4
  • Putative Selenocysteine Lyase 2

External Ids for SCLY Gene

Previous GeneCards Identifiers for SCLY Gene

  • GC02P236925
  • GC02P237558
  • GC02P238985
  • GC02P239256
  • GC02P238751
  • GC02P238634
  • GC02P230761

Summaries for SCLY Gene

Entrez Gene Summary for SCLY Gene

  • Selenocysteine lyase (SCLY; EC catalyzes the pyridoxal 5-prime phosphate-dependent conversion of L-selenocysteine to L-alanine and elemental selenium (Mihara et al., 2000 [PubMed 10692412]).[supplied by OMIM, Mar 2008]

GeneCards Summary for SCLY Gene

SCLY (Selenocysteine Lyase) is a Protein Coding gene. Diseases associated with SCLY include Multiple Personality Disorder. Among its related pathways are Viral mRNA Translation and Metabolism. Gene Ontology (GO) annotations related to this gene include transferase activity and lyase activity. An important paralog of this gene is NFS1.

UniProtKB/Swiss-Prot for SCLY Gene

  • Catalyzes the decomposition of L-selenocysteine to L-alanine and elemental selenium.

Additional gene information for SCLY Gene

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

Genomics for SCLY Gene

GeneHancer (GH) Regulatory Elements for SCLY Gene

Promoters and enhancers for SCLY Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH02I238059 Promoter/Enhancer 2.3 EPDnew FANTOM5 Ensembl ENCODE 550.8 +0.2 242 2.6 HDGF PKNOX1 FOXA2 ZFP64 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 SCLY ESPNL TRAF3IP1 ENSG00000227252 UBE2F KLHL30 UBE2F-SCLY
GH02I238106 Enhancer 1.3 FANTOM5 Ensembl ENCODE 20.3 +47.0 47023 3.5 HDGF FOXA2 MLX ARID4B DMAP1 IRF4 ZNF48 YY1 ZNF143 ATF7 ESPNL SCLY KLHL30 RAMP1
GH02I238202 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE dbSUPER 10.2 +142.5 142485 2.5 ZFP64 SIN3A DMAP1 ZNF48 TCF12 E2F8 ZNF207 ZNF143 RUNX3 SP5 ILKAP ERFE LOC151174 LOC643387 SCLY
GH02I238097 Promoter/Enhancer 1.5 EPDnew Ensembl ENCODE 12.7 +38.9 38919 5.1 HDGF HNRNPUL1 USF1 MAX DEAF1 RAD21 ZKSCAN1 ZFHX2 GLIS2 ZNF316 ESPNL UBE2F KLHL30 SCLY TWIST2 RBM44 COL6A3 HES6 LOC105373953 LINC01940
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SCLY on UCSC Golden Path with GeneCards custom track

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

Genomic Locations for SCLY Gene

Genomic Locations for SCLY Gene
38,525 bases
Plus strand

Genomic View for SCLY Gene

Genes around SCLY on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for SCLY Gene

Proteins for SCLY Gene

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

    Protein Symbol:
    Recommended name:
    Selenocysteine lyase
    Protein Accession:
    Secondary Accessions:
    • B9A068
    • J3KN06
    • Q53SN1
    • Q53SN8
    • Q7L670
    • Q9NVT7
    • Q9NZR7

    Protein attributes for SCLY Gene

    445 amino acids
    Molecular mass:
    48149 Da
    Name=pyridoxal 5-phosphate; Xref=ChEBI:CHEBI:597326;
    Quaternary structure:
    • Homodimer.
    • Sequence=BAA91659.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for SCLY Gene

    Alternative splice isoforms for SCLY Gene


neXtProt entry for SCLY Gene

Selected DME Specific Peptides for SCLY Gene


Post-translational modifications for SCLY Gene

  • Ubiquitination at posLast=307307 and isoforms=341

Domains & Families for SCLY Gene

Gene Families for SCLY Gene

Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins

Suggested Antigen Peptide Sequences for SCLY Gene

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the class-V pyridoxal-phosphate-dependent aminotransferase family.
  • Belongs to the class-V pyridoxal-phosphate-dependent aminotransferase family.
genes like me logo Genes that share domains with SCLY: view

Function for SCLY Gene

Molecular function for SCLY Gene

UniProtKB/Swiss-Prot CatalyticActivity:
L-selenocysteine + reduced acceptor = selenide + L-alanine + acceptor.
UniProtKB/Swiss-Prot Function:
Catalyzes the decomposition of L-selenocysteine to L-alanine and elemental selenium.
UniProtKB/Swiss-Prot Induction:
Up-regulated in acute glomerulonephritis. Regulated by JUN/AP-1.

Enzyme Numbers (IUBMB) for SCLY Gene

Phenotypes From GWAS Catalog for SCLY Gene

Gene Ontology (GO) - Molecular Function for SCLY Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003824 catalytic activity IEA --
GO:0005515 protein binding IPI 21044950
GO:0009000 selenocysteine lyase activity TAS --
GO:0016597 amino acid binding IEA --
GO:0016740 transferase activity IEA --
genes like me logo Genes that share ontologies with SCLY: view
genes like me logo Genes that share phenotypes with SCLY: view

Animal Models for SCLY Gene

MGI Knock Outs for SCLY:
  • Scly tm1a(KOMP)Wtsi

Animal Model Products

miRNA for SCLY Gene

miRTarBase miRNAs that target SCLY

Inhibitory RNA Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SCLY Gene

Localization for SCLY Gene

Subcellular locations from UniProtKB/Swiss-Prot for SCLY Gene

Cytoplasm, cytosol.

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 SCLY gene
Compartment Confidence
cytosol 5
mitochondrion 2
golgi apparatus 2
extracellular 1
peroxisome 1
nucleus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Golgi apparatus (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SCLY Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol TAS --
GO:1902494 catalytic complex IEA --
genes like me logo Genes that share ontologies with SCLY: view

Pathways & Interactions for SCLY Gene

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

Pathways by source for SCLY Gene

Gene Ontology (GO) - Biological Process for SCLY Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001887 selenium compound metabolic process TAS --
GO:0006520 cellular amino acid metabolic process TAS 10692412
GO:0016261 selenocysteine catabolic process IEA --
genes like me logo Genes that share ontologies with SCLY: view

No data available for SIGNOR curated interactions for SCLY Gene

Drugs & Compounds for SCLY Gene

(9) Drugs for SCLY Gene - From: DrugBank, HMDB, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Pyridoxal Phosphate Approved, Investigational Nutra Target, cofactor 17
Selenium Approved, Investigational, Vet_approved Pharma Enzyme, substrate 193
Ammonia Approved Pharma 0
Water Approved Pharma 0
L-Alanine Approved Nutra Full agonist, Agonist Glycine receptor agonist 0

(2) Additional Compounds for SCLY Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
Hydrogen selenide
  • Dihydrogen monoselenide
  • Dihydrogen selenide
  • Hydrogen selenide
  • Selane
  • Selenium dihydride
genes like me logo Genes that share compounds with SCLY: view

Transcripts for SCLY Gene

Unigene Clusters for SCLY Gene

Selenocysteine lyase:
Representative Sequences:

Inhibitory RNA Products

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

ExUns: 1a · 1b · 1c · 1d · 1e · 1f · 1g ^ 2 ^ 3a · 3b ^ 4a · 4b · 4c ^ 5a · 5b ^ 6 ^ 7 ^ 8a · 8b ^ 9a · 9b ^ 10 ^ 11a · 11b ^ 12 ^ 13 ^
SP1: - - - - - - -
SP2: - - - -
SP3: - - -
SP4: - -
SP5: - - - - - - -
SP6: - -
SP7: -
SP8: - -
SP9: - -
SP10: -
SP11: -

ExUns: 14a · 14b ^ 15a · 15b
SP1: -

Relevant External Links for SCLY Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SCLY Gene

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for SCLY Gene

This gene is overexpressed in Heart (15.2), Peripheral blood mononuclear cells (7.3), and Lymph node (7.0).

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

Protein tissue co-expression partners for SCLY Gene

NURSA nuclear receptor signaling pathways regulating expression of SCLY Gene:


SOURCE GeneReport for Unigene cluster for SCLY Gene:


Evidence on tissue expression from TISSUES for SCLY Gene

  • Nervous system(4.7)
  • Liver(4.4)
genes like me logo Genes that share expression patterns with SCLY: view

Primer Products

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SCLY Gene

Orthologs for SCLY Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for SCLY Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia SCLY 33 34
  • 98.49 (n)
(Canis familiaris)
Mammalia SCLY 33 34
  • 83.46 (n)
(Bos Taurus)
Mammalia SCLY 33 34
  • 83.18 (n)
(Mus musculus)
Mammalia Scly 33 16 34
  • 82.05 (n)
(Rattus norvegicus)
Mammalia Scly 33
  • 81.16 (n)
(Ornithorhynchus anatinus)
Mammalia SCLY 34
  • 74 (a)
(Monodelphis domestica)
Mammalia SCLY 34
  • 69 (a)
(Gallus gallus)
Aves SCLY 33 34
  • 70.59 (n)
(Anolis carolinensis)
Reptilia SCLY 34
  • 62 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia scly 33
  • 62.51 (n)
(Danio rerio)
Actinopterygii scly 33 34
  • 63.21 (n)
fruit fly
(Drosophila melanogaster)
Insecta Qtzl 34
  • 22 (a)
(Caenorhabditis elegans)
Secernentea F13H8.9 35 33 34
  • 48.64 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes NFS1 34
  • 29 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 49 (a)
Species where no ortholog for SCLY 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)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • 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)
  • 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 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)

Evolution for SCLY Gene

Gene Tree for SCLY (if available)
Gene Tree for SCLY (if available)

Paralogs for SCLY Gene

Paralogs for SCLY Gene

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

Variants for SCLY Gene

Sequence variations from dbSNP and Humsavar for SCLY Gene

SNP ID Clin Chr 02 pos Variation AA Info Type
rs1000009707 -- 238,087,096(+) A/G intron_variant
rs1000142871 -- 238,064,269(+) C/T intron_variant
rs1000267118 -- 238,085,737(+) A/G intron_variant
rs1000296805 -- 238,085,534(+) C/T intron_variant
rs1000297315 -- 238,066,479(+) G/A intron_variant

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

Variant ID Type Subtype PubMed ID
nsv953215 CNV deletion 24416366
nsv508894 CNV insertion 20534489
nsv1119483 CNV insertion 24896259
nsv1000252 CNV loss 25217958
esv2721746 CNV deletion 23290073
esv1081669 CNV insertion 17803354
dgv4193n100 CNV gain 25217958

Variation tolerance for SCLY Gene

Residual Variation Intolerance Score: 69.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.83; 79.25% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SCLY Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

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

Disorders for SCLY Gene

MalaCards: The human disease database

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

Disorder Aliases PubMed IDs
multiple personality disorder
  • dissociative identity disorder
- elite association - COSMIC cancer census association via MalaCards
Search SCLY in MalaCards View complete list of genes associated with diseases

Additional Disease Information for SCLY

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

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

Publications for SCLY Gene

  1. cDNA cloning, purification, and characterization of mouse liver selenocysteine lyase. Candidate for selenium delivery protein in selenoprotein synthesis. (PMID: 10692412) Mihara H … Esaki N (The Journal of biological chemistry 2000) 2 3 4 22 58
  2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 44 58
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  4. Characterization of selenocysteine lyase in human tissues and its relationship to tissue selenium concentrations. (PMID: 1483038) Daher R … Van Lente F (Journal of trace elements and electrolytes in health and disease 1992) 3 22 58
  5. Panorama of ancient metazoan macromolecular complexes. (PMID: 26344197) Wan C … Emili A (Nature 2015) 3 58

Products for SCLY Gene

Sources for SCLY Gene

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