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Aliases for SCLY Gene

Aliases for SCLY Gene

  • Selenocysteine Lyase 2 3 5
  • EC 4.4.1.16 4 58
  • 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 4.4.1.16) 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 Patellofemoral Pain Syndrome and Multiple Personality Disorder. Among its related pathways are Metabolism and Viral mRNA Translation. 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

Regulatory Elements for SCLY Gene

Enhancers for SCLY 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
GH02H237963 1.7 FANTOM5 Ensembl ENCODE 21.6 -94.1 -94114 6 HDGF PKNOX1 FOXA2 MLX ARNT ZFP64 ARID4B SIN3A DMAP1 YY1 ILKAP UBE2F SCLY ENSG00000227252 RAMP1 TRAF3IP1 LOC643387 ESPNL KLHL30 ASB1
GH02H238106 1.5 FANTOM5 Ensembl ENCODE 20.3 +47.0 47024 3 HDGF FOXA2 MLX SIN3A ARID4B DMAP1 YY1 ZNF143 ATF7 MXD4 ESPNL SCLY KLHL30 RAMP1
GH02H238141 1.7 FANTOM5 Ensembl ENCODE dbSUPER 10.9 +81.9 81857 3 ELF3 PKNOX1 NFIB KLF17 SIN3A ZNF366 FOS EGR2 SMARCA5 SMARCC1 KLHL30 SCLY ERFE UBE2F KLHL30-AS1
GH02H237922 1.4 Ensembl ENCODE dbSUPER 10.5 -137.6 -137589 1 ATF1 RB1 ARID4B DMAP1 RAD21 ZNF143 FOS RCOR1 CREM THAP11 UBE2F RAMP1 ILKAP RBM44 SCLY PER2 LOC105373960 ENSG00000263723
GH02H238097 1.1 Ensembl ENCODE 12.7 +38.9 38919 5 HNRNPUL1 HDGF DEAF1 MAX RAD21 ZKSCAN1 ZFHX2 GLIS2 ZNF316 POLR2A ESPNL UBE2F KLHL30 SCLY TWIST2 RBM44 COL6A3 HES6 LOC105373953 LINC01940
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SCLY on UCSC Golden Path with GeneCards custom track

Promoters for SCLY Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000132772 211 1801 HDGF PKNOX1 FOXA2 ZFP64 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9

Genomic Location for SCLY Gene

Chromosome:
2
Start:
238,060,889 bp from pter
End:
238,099,413 bp from pter
Size:
38,525 bases
Orientation:
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:
    Q96I15-SCLY_HUMAN
    Recommended name:
    Selenocysteine lyase
    Protein Accession:
    Q96I15
    Secondary Accessions:
    • B9A068
    • J3KN06
    • Q53SN1
    • Q53SN8
    • Q7L670
    • Q9NVT7
    • Q9NZR7

    Protein attributes for SCLY Gene

    Size:
    445 amino acids
    Molecular mass:
    48149 Da
    Cofactor:
    Name=pyridoxal 5-phosphate; Xref=ChEBI:CHEBI:597326;
    Quaternary structure:
    • Homodimer.
    SequenceCaution:
    • 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

    UniProtKB/Swiss-Prot:

neXtProt entry for SCLY Gene

Selected DME Specific Peptides for SCLY Gene

Q96I15:
  • DYNATTP
  • NFRPGTENTPMIAGLG
  • VTFVPVSKV
  • RDYLEERL
  • IFTSGGTESNNLVI
  • EAWGNPSS

Post-translational modifications for SCLY Gene

  • Ubiquitination at Lys307 and isoforms=341
  • Modification sites at PhosphoSitePlus

Domains & Families for SCLY Gene

Gene Families for SCLY Gene

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

Suggested Antigen Peptide Sequences for SCLY Gene

Graphical View of Domain Structure for InterPro Entry

Q96I15

UniProtKB/Swiss-Prot:

SCLY_HUMAN :
  • Belongs to the class-V pyridoxal-phosphate-dependent aminotransferase family.
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

CRISPR Products

miRNA for SCLY Gene

miRTarBase miRNAs that target SCLY

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for SCLY
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

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

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 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
Selenium Approved, Vet_approved Pharma Enzyme, substrate 185
Ammonia Approved Pharma 0
Water Approved Pharma 0
L-Alanine Approved Nutra Full agonist, Agonist Glycine receptor agonist 0
Pyruvic acid Approved, Investigational Nutra 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
Methaneselenol
genes like me logo Genes that share compounds with SCLY: view

Transcripts for SCLY Gene

Unigene Clusters for SCLY Gene

Selenocysteine lyase:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for SCLY
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

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: -
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:

Relevant External Links for SCLY Gene

GeneLoc Exon Structure for
SCLY
ECgene alternative splicing isoforms for
SCLY

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:

SCLY

SOURCE GeneReport for Unigene cluster for SCLY Gene:

Hs.731909

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
chimpanzee
(Pan troglodytes)
Mammalia SCLY 33 34
  • 98.49 (n)
dog
(Canis familiaris)
Mammalia SCLY 33 34
  • 83.46 (n)
cow
(Bos Taurus)
Mammalia SCLY 33 34
  • 83.18 (n)
mouse
(Mus musculus)
Mammalia Scly 33 16 34
  • 82.05 (n)
rat
(Rattus norvegicus)
Mammalia Scly 33
  • 81.16 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia SCLY 34
  • 74 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SCLY 34
  • 69 (a)
OneToOne
chicken
(Gallus gallus)
Aves SCLY 33 34
  • 70.59 (n)
lizard
(Anolis carolinensis)
Reptilia SCLY 34
  • 62 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia scly 33
  • 62.51 (n)
zebrafish
(Danio rerio)
Actinopterygii scly 33 34
  • 63.21 (n)
fruit fly
(Drosophila melanogaster)
Insecta Qtzl 34
  • 22 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea F13H8.9 35 33 34
  • 48.64 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes NFS1 34
  • 29 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 49 (a)
OneToOne
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

ENSEMBL:
Gene Tree for SCLY (if available)
TreeFam:
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 Sequence Context AA Info Type
rs1000009707 -- 238,087,096(+) AAGGC(A/G)GGTAG intron-variant
rs1000142871 -- 238,064,269(+) TTGCT(C/T)CTGCC intron-variant
rs1000267118 -- 238,085,737(+) AAAGA(A/G)TGGGG intron-variant
rs1000296805 -- 238,085,534(+) TAACA(C/T)GGTGA intron-variant
rs1000297315 -- 238,066,479(+) ACGGT(A/G)CCCAA intron-variant

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

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

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)

Relevant External Links for SCLY Gene

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

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

Disorders for SCLY Gene

MalaCards: The human disease database

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

Disorder Aliases PubMed IDs
patellofemoral pain syndrome
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

Relevant External Links for SCLY

Genetic Association Database (GAD)
SCLY
Human Genome Epidemiology (HuGE) Navigator
SCLY
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SCLY
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 60
  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 45 60
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 60
  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 60
  5. A human interactome in three quantitative dimensions organized by stoichiometries and abundances. (PMID: 26496610) Hein MY … Mann M (Cell 2015) 3 60

Products for SCLY Gene

Sources for SCLY Gene

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