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

Aliases for SDR16C5 Gene

Aliases for SDR16C5 Gene

  • Short Chain Dehydrogenase/Reductase Family 16C Member 5 2 3 5
  • Retinal Short-Chain Dehydrogenase Reductase 2 3 4
  • Epidermal Retinol Dehydrogenase 2 2 3
  • RETSDR2 3 4
  • RDH-E2 3 4
  • EPHD-2 3 4
  • RDHE2 3 4
  • Short Chain Dehydrogenase/Reductase Family 16C, Member 5 2
  • Short-Chain Dehydrogenase/Reductase Family 16C Member 5 4
  • Retinal Short Chain Dehydrogenase Reductase 3
  • Epidermal Retinal Dehydrogenase 2 3
  • EC 1.1.1.105 4
  • RDH#2 3

External Ids for SDR16C5 Gene

Previous GeneCards Identifiers for SDR16C5 Gene

  • GC08M057376
  • GC08M057212
  • GC08M052679

Summaries for SDR16C5 Gene

Entrez Gene Summary for SDR16C5 Gene

  • This gene encodes a member of the short-chain alcohol dehydrogenase/reductase superfamily of proteins and is involved in the oxidation of retinol to retinaldehyde. The encoded protein is associated with the endoplasmic reticulum and is predicted to contain three transmembrane helices, suggesting that it is an integral membrane protein. It recognizes all-trans-retinol and all-trans-retinaldehyde as substrates and exhibits a strong preference for NAD(+)/NADH as cofactors. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2015]

GeneCards Summary for SDR16C5 Gene

SDR16C5 (Short Chain Dehydrogenase/Reductase Family 16C Member 5) is a Protein Coding gene. Among its related pathways are Signaling by Retinoic Acid and Signaling by GPCR. GO annotations related to this gene include oxidoreductase activity and retinol dehydrogenase activity. An important paralog of this gene is RDH10.

UniProtKB/Swiss-Prot for SDR16C5 Gene

  • Oxidoreductase with strong preference for NAD. Active in both the oxidative and reductive directions. Oxidizes all-trans-retinol in all-trans-retinaldehyde. No activity was detected with 11-cis-retinol or 11-cis-retinaldehyde as substrates with either NAD(+)/NADH or NADP(+)/NADPH.

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SDR16C5 Gene

Genomics for SDR16C5 Gene

Regulatory Elements for SDR16C5 Gene

Enhancers for SDR16C5 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
GH08G056292 0.8 ENCODE 12.5 +27.4 27419 1.4 HDGF PKNOX1 CBX3 NFIB TSC22D4 ZNF175 GLI4 ZBTB7B ARID3A ZNF302 SDR16C5 TGS1 ENSG00000254216
GH08G056447 0.8 FANTOM5 1.5 -127.3 -127337 0.5 CTCF ZNF654 RB1 MAX REST ZNF48 RAD21 SMARCA4 GABPB1 ZNF143 PENK SDR16C5 SEPT10P1
GH08G056319 0.7 ENCODE 0.7 +0.3 253 1.9 KLF1 TAF1 MAX CEBPB KLF4 RFX5 E2F1 POLR2A ZBTB33 MYC SDR16C5 ENSG00000254216
GH08G056322 0.7 ENCODE 0.7 -2.1 -2141 0.2 ELF3 FOXA2 JUN RFX5 FOSL1 FOSL2 FOS RNF2 FOXA3 CEBPB SDR16C5 GC08P056329
GH08G056303 0.3 FANTOM5 0.4 +17.4 17444 0.0 SDR16C5 ENSG00000254216
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SDR16C5 on UCSC Golden Path with GeneCards custom track

Genomic Location for SDR16C5 Gene

Chromosome:
8
Start:
56,300,010 bp from pter
End:
56,320,776 bp from pter
Size:
20,767 bases
Orientation:
Minus strand

Genomic View for SDR16C5 Gene

Genes around SDR16C5 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SDR16C5 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SDR16C5 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SDR16C5 Gene

Proteins for SDR16C5 Gene

  • Protein details for SDR16C5 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8N3Y7-RDHE2_HUMAN
    Recommended name:
    Epidermal retinol dehydrogenase 2
    Protein Accession:
    Q8N3Y7
    Secondary Accessions:
    • B4DGK2
    • Q330K3
    • Q8TDV9
    • Q96LX1

    Protein attributes for SDR16C5 Gene

    Size:
    309 amino acids
    Molecular mass:
    34095 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAB71545.1; Type=Frameshift; Positions=226; Evidence={ECO:0000305};

    Alternative splice isoforms for SDR16C5 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SDR16C5 Gene

Post-translational modifications for SDR16C5 Gene

No Post-translational modifications

Other Protein References for SDR16C5 Gene

No data available for DME Specific Peptides for SDR16C5 Gene

Domains & Families for SDR16C5 Gene

Gene Families for SDR16C5 Gene

Suggested Antigen Peptide Sequences for SDR16C5 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q8N3Y7

UniProtKB/Swiss-Prot:

RDHE2_HUMAN :
  • Belongs to the short-chain dehydrogenases/reductases (SDR) family.
Family:
  • Belongs to the short-chain dehydrogenases/reductases (SDR) family.
genes like me logo Genes that share domains with SDR16C5: view

Function for SDR16C5 Gene

Molecular function for SDR16C5 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
All-trans-retinol-[cellular-retinol-binding-protein] + NAD(+) = all-trans-retinal-[cellular-retinol-binding-protein] + NADH.
UniProtKB/Swiss-Prot Function:
Oxidoreductase with strong preference for NAD. Active in both the oxidative and reductive directions. Oxidizes all-trans-retinol in all-trans-retinaldehyde. No activity was detected with 11-cis-retinol or 11-cis-retinaldehyde as substrates with either NAD(+)/NADH or NADP(+)/NADPH.

Enzyme Numbers (IUBMB) for SDR16C5 Gene

Gene Ontology (GO) - Molecular Function for SDR16C5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001191 transcriptional repressor activity, RNA polymerase II transcription factor binding IDA 16691198
GO:0004745 retinol dehydrogenase activity TAS --
GO:0008134 transcription factor binding IPI 16691198
GO:0016491 oxidoreductase activity IEA --
GO:0033613 activating transcription factor binding IPI 16691198
genes like me logo Genes that share ontologies with SDR16C5: view
genes like me logo Genes that share phenotypes with SDR16C5: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SDR16C5 Gene

Localization for SDR16C5 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SDR16C5 Gene

Endoplasmic reticulum membrane; Multi-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 SDR16C5 gene
Compartment Confidence
endoplasmic reticulum 5
nucleus 4
extracellular 2
plasma membrane 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for SDR16C5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000785 colocalizes_with chromatin IDA 16691198
GO:0005634 nucleus IDA 16691198
GO:0005783 colocalizes_with endoplasmic reticulum IDA,IEA 16691198
GO:0005789 endoplasmic reticulum membrane TAS --
GO:0005886 colocalizes_with plasma membrane IDA 16691198
genes like me logo Genes that share ontologies with SDR16C5: view

Pathways & Interactions for SDR16C5 Gene

genes like me logo Genes that share pathways with SDR16C5: view

Pathways by source for SDR16C5 Gene

1 KEGG pathway for SDR16C5 Gene

UniProtKB/Swiss-Prot Q8N3Y7-RDHE2_HUMAN

  • Pathway: Cofactor metabolism; retinol metabolism.

Gene Ontology (GO) - Biological Process for SDR16C5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription from RNA polymerase II promoter IMP 16691198
GO:0031065 positive regulation of histone deacetylation IDA 16691198
GO:0035067 negative regulation of histone acetylation IDA 16691198
GO:0042572 retinol metabolic process IEA --
GO:0042574 retinal metabolic process IDA 18926804
genes like me logo Genes that share ontologies with SDR16C5: view

No data available for SIGNOR curated interactions for SDR16C5 Gene

Drugs & Compounds for SDR16C5 Gene

(3) Drugs for SDR16C5 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Vitamin A Approved, Vet_approved Nutra 492
NAD Pharma Full agonist, Agonist 0
NADH Nutra 0

(2) Additional Compounds for SDR16C5 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
Hydrogen Ion
  • Hydrogen cation
  • Hydron
  • Proton
Retinal
  • 3,7-Dimethyl-9-(2,6,6-trimethyl-1-cyclohexen-1-yl)-2,4,6,8-Nonatetraenal
  • All-E-Retinal
  • All-epsilon-Retinal
  • All-trans-Retinal
  • All-trans-Retinaldehyde
116-31-4
genes like me logo Genes that share compounds with SDR16C5: view

Transcripts for SDR16C5 Gene

Unigene Clusters for SDR16C5 Gene

Short chain dehydrogenase/reductase family 16C, member 5:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SDR16C5 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8a · 8b
SP1:
SP2: -
SP3: - -

Relevant External Links for SDR16C5 Gene

GeneLoc Exon Structure for
SDR16C5
ECgene alternative splicing isoforms for
SDR16C5

Expression for SDR16C5 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SDR16C5 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SDR16C5 Gene

This gene is overexpressed in Skin - Sun Exposed (Lower leg) (x9.9), Esophagus - Mucosa (x9.2), Skin - Not Sun Exposed (Suprapubic) (x8.4), and Lung (x7.9).

Protein differential expression in normal tissues from HIPED for SDR16C5 Gene

This gene is overexpressed in Nasal epithelium (35.3) and Cervix (23.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SDR16C5 Gene



NURSA nuclear receptor signaling pathways regulating expression of SDR16C5 Gene:

SDR16C5

SOURCE GeneReport for Unigene cluster for SDR16C5 Gene:

Hs.170673

mRNA Expression by UniProt/SwissProt for SDR16C5 Gene:

Q8N3Y7-RDHE2_HUMAN
Tissue specificity: Detected in adult lung. Detected at low levels in adult brain, heart, testis, placenta, cervix, pancreas, uterus, stomach, rectum, small intestine, colon, esophagus, thymus, skin, and skin keratinocyte. Expression is higher in psoriasis lesions relative to unaffected skin from psoriasis patients. Detected in fetal kidney, skin and lung.

Evidence on tissue expression from TISSUES for SDR16C5 Gene

  • Skin(4.4)
  • Nervous system(4.1)
genes like me logo Genes that share expression patterns with SDR16C5: view

Primer Products

No data available for Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for SDR16C5 Gene

Orthologs for SDR16C5 Gene

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

Orthologs for SDR16C5 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SDR16C5 34 35
  • 99.78 (n)
rat
(Rattus norvegicus)
Mammalia Sdr16c5 34
  • 83.44 (n)
cow
(Bos Taurus)
Mammalia SDR16C5 34 35
  • 82.88 (n)
mouse
(Mus musculus)
Mammalia Sdr16c5 34 16 35
  • 82.36 (n)
dog
(Canis familiaris)
Mammalia SDR16C5 34 35
  • 82.03 (n)
oppossum
(Monodelphis domestica)
Mammalia SDR16C5 35
  • 68 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SDR16C5 35
  • 67 (a)
OneToOne
chicken
(Gallus gallus)
Aves SDR16C5 34 35
  • 64.55 (n)
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 52 (a)
OneToMany
-- 35
  • 49 (a)
OneToMany
-- 35
  • 49 (a)
OneToMany
-- 35
  • 47 (a)
OneToMany
-- 35
  • 46 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia sdr16c5 34
  • 64.36 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.29444 34
zebrafish
(Danio rerio)
Actinopterygii sdr16c5b 34
  • 61.51 (n)
SDR16C5 35
  • 44 (a)
OneToOne
Dr.26431 34
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.5426 34
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP010232 34
  • 53.73 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG9265 34 35
  • 52.92 (n)
CG15629 35
  • 35 (a)
ManyToMany
worm
(Caenorhabditis elegans)
Secernentea dhs-19 34 35
  • 58.39 (n)
dhs-3 35
  • 46 (a)
OneToMany
dhs-4 35
  • 39 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes -- 35
  • 24 (a)
ManyToMany
TDA5 35
  • 21 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.5456 35
  • 46 (a)
OneToOne
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.12306 34
Species where no ortholog for SDR16C5 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • 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 SDR16C5 Gene

ENSEMBL:
Gene Tree for SDR16C5 (if available)
TreeFam:
Gene Tree for SDR16C5 (if available)

Paralogs for SDR16C5 Gene

Paralogs for SDR16C5 Gene

(4) SIMAP similar genes for SDR16C5 Gene using alignment to 2 proteins:

Pseudogenes.org Pseudogenes for SDR16C5 Gene

genes like me logo Genes that share paralogs with SDR16C5: view

Variants for SDR16C5 Gene

Sequence variations from dbSNP and Humsavar for SDR16C5 Gene

SNP ID Clin Chr 08 pos Sequence Context AA Info Type
rs1000172263 -- 56,304,400(+) ACAGT(C/T)TAGAA intron-variant
rs1000265274 -- 56,311,855(+) TCTCA(C/T)CGAGC intron-variant
rs1000459092 -- 56,318,154(+) GCAGA(A/G)GGACA intron-variant
rs1000474286 -- 56,302,252(+) CCCAT(A/G)CTCCT intron-variant
rs1000563006 -- 56,317,490(+) GCATA(C/G)TGTGC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SDR16C5 Gene

Variant ID Type Subtype PubMed ID
esv2737024 CNV deletion 23290073

Variation tolerance for SDR16C5 Gene

Residual Variation Intolerance Score: 20% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.88; 35.15% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SDR16C5 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SDR16C5

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SDR16C5 Gene

Disorders for SDR16C5 Gene

Relevant External Links for SDR16C5

Human Genome Epidemiology (HuGE) Navigator
SDR16C5
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SDR16C5

No disorders were found for SDR16C5 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SDR16C5 Gene

Publications for SDR16C5 Gene

  1. Identification of the hRDH-E2 gene, a novel member of the SDR family, and its increased expression in psoriatic lesion. (PMID: 12372410) Matsuzaka Y. … Inoko H. (Biochem. Biophys. Res. Commun. 2002) 2 3 4 22 64
  2. Biochemical characterization of human epidermal retinol dehydrogenase 2. (PMID: 18926804) Lee S.-A. … Kedishvili N.Y. (Chem. Biol. Interact. 2009) 3 4 22 64
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  4. hRDH-E2 gene polymorphisms, variable transcriptional start sites, and psoriasis. (PMID: 15457346) Matsuzaka Y. … Inoko H. (Mamm. Genome 2004) 3 4 64
  5. Meta-analysis of genome-wide association studies of adult height in East Asians identifies 17 novel loci. (PMID: 25429064) He M. … Qi L. (Hum. Mol. Genet. 2015) 3 64

Products for SDR16C5 Gene

Sources for SDR16C5 Gene

Content
Loading form....