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Aliases for RDH16 Gene

Aliases for RDH16 Gene

  • Retinol Dehydrogenase 16 (All-Trans) 2 3 5
  • Short Chain Dehydrogenase/Reductase Family 9C, Member 8 2 3
  • Retinol Dehydrogenase 16 (All-Trans And 13-Cis) 2 3
  • Sterol/Retinol Dehydrogenase 3 4
  • RODH-4 3 4
  • SDR9C8 3 4
  • Short Chain Dehydrogenase/Reductase Family 9C Member 8 4
  • Microsomal NAD(+)-Dependent Retinol Dehydrogenase 4 4
  • Microsomal NAD+ Dependent Retinol Dehydrogenase 4 2
  • Microsomal NAD+-Dependent Retinol Dehydrogenase 4 3
  • Retinol Dehydrogenase 16 3
  • EC 1.1.1.105 56
  • EC 1.1.-.- 4
  • EC 1.1.1 56
  • RODH4 4

External Ids for RDH16 Gene

Previous GeneCards Identifiers for RDH16 Gene

  • GC12M055632
  • GC12M057346
  • GC12M054383

Summaries for RDH16 Gene

GeneCards Summary for RDH16 Gene

RDH16 (Retinol Dehydrogenase 16 (All-Trans)) is a Protein Coding gene. Among its related pathways are the visual cycle I (vertebrates) and Metabolism. Gene Ontology (GO) annotations related to this gene include oxidoreductase activity and retinol dehydrogenase activity. An important paralog of this gene is HSD17B6.

UniProtKB/Swiss-Prot for RDH16 Gene

  • Oxidoreductase with a preference for NAD. Oxidizes all-trans-retinol and 13-cis-retinol to the corresponding aldehydes. Has higher activity towards CRBP-bound retinol than with free retinol. Oxidizes 3-alpha-hydroxysteroids. Oxidizes androstanediol and androsterone to dihydrotestosterone and androstanedione. Can also catalyze the reverse reaction.

Additional gene information for RDH16 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RDH16 Gene

Genomics for RDH16 Gene

GeneHancer (GH) Regulatory Elements for RDH16 Gene

Promoters and enhancers for RDH16 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
GH12I056957 Promoter 0.9 EPDnew 550.8 +1.7 1746 0.1 ZNF687 FOXA2 CLOCK RXRA NFIB MAX REST RAD21 FOXA1 YY1 PIR57702 RDH16 LOC100420982
GH12I056768 Enhancer 0.8 FANTOM5 25.5 +190.7 190706 0.2 FOXA2 TAF1 MAX CEBPG RAD21 YY1 IRF9 CTBP1 GATA3 GATAD2A APOF HSD17B6 RDH16 SPRYD4 GLS2 GPR182 NACA MYO1A PAN2 PIR51277
GH12I056987 Enhancer 1.2 Ensembl ENCODE 11 -29.1 -29103 2.2 PKNOX1 SMAD1 ARNT ARID4B ZNF766 CBX5 E2F8 ZNF143 DEK REST BAZ2A NEMP1 MBD6 RN7SL809P ZC3H10 ZBTB39 MYO1A SDR9C7 STAT2 CTDSP2
GH12I056990 Enhancer 1.1 Ensembl ENCODE 10.9 -32.2 -32227 1.3 HDGF PKNOX1 ATF1 RAD21 ZBTB40 ZNF766 ETV6 IKZF2 RUNX3 SMARCA5 RDH16 MYO1A SDR9C7 GPR182 LOC390332
GH12I056876 Enhancer 0.9 ENCODE 10.8 +81.6 81566 1.8 ATF1 PKNOX1 TCF12 GATA2 ATF7 RXRA REST MBD2 NFIL3 SMARCA4 RDH16 SDR9C7 GPR182 MYO1A PIR60861 ENSG00000212383
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around RDH16 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the RDH16 gene promoter:

Genomic Locations for RDH16 Gene

Genomic Locations for RDH16 Gene
chr12:56,951,431-56,959,374
(GRCh38/hg38)
Size:
7,944 bases
Orientation:
Minus strand
chr12:57,345,215-57,353,158
(GRCh37/hg19)

Genomic View for RDH16 Gene

Genes around RDH16 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RDH16 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RDH16 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RDH16 Gene

Proteins for RDH16 Gene

  • Protein details for RDH16 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O75452-RDH16_HUMAN
    Recommended name:
    Retinol dehydrogenase 16
    Protein Accession:
    O75452
    Secondary Accessions:
    • Q9UNV2

    Protein attributes for RDH16 Gene

    Size:
    317 amino acids
    Molecular mass:
    35673 Da
    Quaternary structure:
    No Data Available

neXtProt entry for RDH16 Gene

Selected DME Specific Peptides for RDH16 Gene

O75452:
  • GLVNNAG
  • TGCDSGFG
  • GVEAFSD
  • RVLAACLTEKGAEQLR
  • EAFSDSLRR

Post-translational modifications for RDH16 Gene

Other Protein References for RDH16 Gene

ENSEMBL proteins:
REFSEQ proteins:

Domains & Families for RDH16 Gene

Gene Families for RDH16 Gene

Suggested Antigen Peptide Sequences for RDH16 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O75452

UniProtKB/Swiss-Prot:

RDH16_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 RDH16: view

Function for RDH16 Gene

Molecular function for RDH16 Gene

UniProtKB/Swiss-Prot BiophysicochemicalProperties:
Kinetic parameters: KM=0.14 uM for androsterone {ECO:0000269 PubMed:9677409}; KM=0.22 uM for androstanediol {ECO:0000269 PubMed:9677409}; KM=0.80 uM for dihydrotestosterone {ECO:0000269 PubMed:9677409}; KM=0.13 uM for NAD {ECO:0000269 PubMed:9677409}; KM=190 uM for NADP {ECO:0000269 PubMed:9677409};
UniProtKB/Swiss-Prot EnzymeRegulation:
Inhibited by citral, perillyl alcohol, geraniol, farnesol and geranyl geraniol.
UniProtKB/Swiss-Prot Function:
Oxidoreductase with a preference for NAD. Oxidizes all-trans-retinol and 13-cis-retinol to the corresponding aldehydes. Has higher activity towards CRBP-bound retinol than with free retinol. Oxidizes 3-alpha-hydroxysteroids. Oxidizes androstanediol and androsterone to dihydrotestosterone and androstanedione. Can also catalyze the reverse reaction.
UniProtKB/Swiss-Prot Induction:
Transiently up-regulated by retinoic acid.

Enzyme Numbers (IUBMB) for RDH16 Gene

Phenotypes From GWAS Catalog for RDH16 Gene

Gene Ontology (GO) - Molecular Function for RDH16 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004745 retinol dehydrogenase activity TAS --
GO:0009055 electron transfer activity TAS 9677409
GO:0016491 oxidoreductase activity IEA --
genes like me logo Genes that share ontologies with RDH16: view
genes like me logo Genes that share phenotypes with RDH16: view

Animal Models for RDH16 Gene

MGI Knock Outs for RDH16:

Animal Model Products

CRISPR Products

miRNA for RDH16 Gene

miRTarBase miRNAs that target RDH16

Inhibitory RNA Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for RDH16 Gene

Localization for RDH16 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RDH16 Gene

Microsome membrane; Single-pass type IV membrane protein. Endoplasmic reticulum membrane; Single-pass type IV 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 RDH16 gene
Compartment Confidence
endoplasmic reticulum 4
mitochondrion 3
extracellular 2
plasma membrane 1
peroxisome 1
nucleus 1
cytosol 1

Gene Ontology (GO) - Cellular Components for RDH16 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005783 endoplasmic reticulum IEA --
GO:0005789 endoplasmic reticulum membrane TAS --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0031090 organelle membrane IEA --
genes like me logo Genes that share ontologies with RDH16: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for RDH16 Gene

Pathways & Interactions for RDH16 Gene

genes like me logo Genes that share pathways with RDH16: view

Pathways by source for RDH16 Gene

Gene Ontology (GO) - Biological Process for RDH16 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006629 lipid metabolic process TAS 9677409
GO:0022900 electron transport chain IEA --
GO:0055114 oxidation-reduction process IEA --
genes like me logo Genes that share ontologies with RDH16: view

No data available for SIGNOR curated interactions for RDH16 Gene

Drugs & Compounds for RDH16 Gene

(2) Drugs for RDH16 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
farnesol Experimental Pharma Competitive, Inhibitor 0
NAD Pharma Full agonist, Agonist 0

(2) Additional Compounds for RDH16 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
androstanediol
  • 3-a-Androstanediol
  • 3-alpha-Androstanediol
  • 3alpha-androstanediol
  • 5 a-Androstane-3 a, 17 b-diol
  • 5 alpha-Androstane-3 alpha, 17 beta-diol
25126-76-5
Androsterone
  • (3alpha,5alpha)-3-hydroxy-Androstan-17-one
  • (3R,5S,8R,9S,10S,13S,14S)-3-hydroxy-10,13-dimethyl-1,2,3,4,5,6,7,8,9,11,12,14,15,16-tetradecahydrocyclopenta[a]phenanthren-17-one
  • 3-alpha-Hydroxy-17-androstanone
  • 3-alpha-Hydroxy-5-alpha-androstan-17-one
  • 3-alpha-Hydroxy-5-alpha-androstane-17-one
53-41-8
genes like me logo Genes that share compounds with RDH16: view

Transcripts for RDH16 Gene

mRNA/cDNA for RDH16 Gene

Unigene Clusters for RDH16 Gene

Retinol dehydrogenase 16 (all-trans):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for RDH16 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4
SP1:
SP2: -

Relevant External Links for RDH16 Gene

GeneLoc Exon Structure for
RDH16
ECgene alternative splicing isoforms for
RDH16

Expression for RDH16 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RDH16 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for RDH16 Gene

This gene is overexpressed in Liver (x47.6).

Protein differential expression in normal tissues from HIPED for RDH16 Gene

This gene is overexpressed in Gallbladder (43.4) and Liver (25.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for RDH16 Gene



Protein tissue co-expression partners for RDH16 Gene

NURSA nuclear receptor signaling pathways regulating expression of RDH16 Gene:

RDH16

SOURCE GeneReport for Unigene cluster for RDH16 Gene:

Hs.134958

mRNA Expression by UniProt/SwissProt for RDH16 Gene:

O75452-RDH16_HUMAN
Tissue specificity: Highly expressed in adult liver (at protein level). Detected in endometrium, liver and foreskin. Detected in the spineous layers of adult skin, and at lower levels in basal and granular skin layers. Detected in fetal liver and lung.

Evidence on tissue expression from TISSUES for RDH16 Gene

  • Liver(4.6)
  • Skin(4.2)
genes like me logo Genes that share expression patterns with RDH16: view

Primer Products

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for RDH16 Gene

Orthologs for RDH16 Gene

This gene was present in the common ancestor of chordates.

Orthologs for RDH16 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RDH16 33 34
  • 99.16 (n)
cow
(Bos Taurus)
Mammalia RDH16 33 34
  • 81.91 (n)
dog
(Canis familiaris)
Mammalia RDH16 33 34
  • 80.86 (n)
mouse
(Mus musculus)
Mammalia Rdh1 33 34
  • 78.65 (n)
Rdh16 34
  • 73 (a)
OneToMany
Rdh7 34
  • 73 (a)
OneToMany
RP23-386P10.11 34
  • 73 (a)
OneToMany
Rdh9 16 34
  • 72 (a)
Rdh19 34
  • 71 (a)
OneToMany
BC089597 34
  • 69 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Rdh16 33
  • 78.02 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 67 (a)
ManyToMany
oppossum
(Monodelphis domestica)
Mammalia RDH16 34
  • 66 (a)
OneToOne
chicken
(Gallus gallus)
Aves LOC776432 33
  • 64.91 (n)
-- 34
  • 59 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 34
  • 62 (a)
ManyToMany
-- 34
  • 62 (a)
ManyToMany
-- 34
  • 61 (a)
ManyToMany
-- 34
  • 61 (a)
ManyToMany
-- 34
  • 60 (a)
ManyToMany
-- 34
  • 59 (a)
ManyToMany
-- 34
  • 58 (a)
ManyToMany
-- 34
  • 56 (a)
ManyToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia rdh16 33
  • 62.64 (n)
zebrafish
(Danio rerio)
Actinopterygii dhrs9 33 34
  • 58.46 (n)
wufb64b07 33
Species where no ortholog for RDH16 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)
  • 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 RDH16 Gene

ENSEMBL:
Gene Tree for RDH16 (if available)
TreeFam:
Gene Tree for RDH16 (if available)

Paralogs for RDH16 Gene

Paralogs for RDH16 Gene

(8) SIMAP similar genes for RDH16 Gene using alignment to 1 proteins:

Pseudogenes.org Pseudogenes for RDH16 Gene

genes like me logo Genes that share paralogs with RDH16: view

Variants for RDH16 Gene

Sequence variations from dbSNP and Humsavar for RDH16 Gene

SNP ID Clin Chr 12 pos Variation AA Info Type
rs1000296285 -- 56,959,792(-) T/A upstream_transcript_variant
rs1000507895 -- 56,960,474(-) G/A upstream_transcript_variant
rs1000602509 -- 56,960,859(-) A/T upstream_transcript_variant
rs1001040141 -- 56,959,928(-) C/A upstream_transcript_variant
rs1001141359 -- 56,955,593(-) G/C intron_variant

Structural Variations from Database of Genomic Variants (DGV) for RDH16 Gene

Variant ID Type Subtype PubMed ID
dgv2649n54 CNV loss 21841781
esv24053 CNV gain+loss 19812545
esv2760274 CNV gain 21179565
esv2761077 CNV loss 21179565
esv3580284 CNV loss 25503493
esv3581649 CNV gain 25503493
esv3629605 CNV loss 21293372
esv3629606 CNV gain 21293372
esv3892203 CNV gain+loss 25118596
nsv1043846 CNV gain 25217958
nsv1051116 CNV loss 25217958
nsv436148 CNV deletion 17901297
nsv482992 CNV gain+loss 15286789
nsv512276 CNV loss 21212237
nsv516039 CNV loss 19592680
nsv559020 CNV loss 21841781
nsv832428 CNV gain 17160897
nsv975650 CNV duplication 23825009

Variation tolerance for RDH16 Gene

Residual Variation Intolerance Score: 73.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.48; 43.55% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for RDH16 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RDH16

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RDH16 Gene

Disorders for RDH16 Gene

Additional Disease Information for RDH16

No disorders were found for RDH16 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RDH16 Gene

Publications for RDH16 Gene

  1. cDNA cloning and characterization of a new human microsomal NAD+-dependent dehydrogenase that oxidizes all-trans-retinol and 3alpha-hydroxysteroids. (PMID: 9677409) Gough WH … Kedishvili NY (The Journal of biological chemistry 1998) 2 3 4 22 58
  2. Cloning and characterization of retinol dehydrogenase transcripts expressed in human epidermal keratinocytes. (PMID: 10329026) Jurukovski V … Simon M (Molecular genetics and metabolism 1999) 2 3 4 58
  3. The SDR (short-chain dehydrogenase/reductase and related enzymes) nomenclature initiative. (PMID: 19027726) Persson B … Oppermann U (Chemico-biological interactions 2009) 2 3 58
  4. Differential recognition of the free versus bound retinol by human microsomal retinol/sterol dehydrogenases: characterization of the holo-CRBP dehydrogenase activity of RoDH-4. (PMID: 12534290) Lapshina EA … Kedishvili NY (Biochemistry 2003) 3 4 58
  5. Expression of a retinol dehydrogenase (hRoDH-4), a member of the retinol/steroid dehydrogenase family implicated in retinoic acid biosynthesis, in normal and neoplastic endometria. (PMID: 11967490) Cain JM … Weisz J (American journal of obstetrics and gynecology 2002) 3 4 58

Products for RDH16 Gene

Sources for RDH16 Gene

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