DHRS9

dehydrogenase/reductase 9, the group of Short chain dehydrogenase/reductase superfamily

Basic information

Region (hg38): 2:169064789-169096167

Links

ENSG00000073737 ∙ NCBI:10170 ∙ OMIM:612131 ∙ HGNC:16888 ∙ Uniprot:Q9BPW9 ∙ AlphaFold ∙ GenCC ∙ jax ∙ Sfari ∙ GnomAD ∙ Pubmed ∙ ClinVar

Phenotypes

GenCC

Source: genCC

No genCC data.

ClinVar

This is a list of variants' phenotypes submitted to ClinVar and linked to the DHRS9 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the DHRS9 gene is commonly pathogenic or not.

In the table, we include only reliable ClinVar variants with their consequences to MANE Select, Mane Plus Clinical transcripts, or transcripts with TSL equals 1. Click the count to view the source variants.

Warning: slight differences between displayed counts and the number of variants in ClinVar may occur, primarily due to (1) the application of a different transcript and/or consequence by our variant effect predictor or (2) differences in clinical significance: we classify Benign/Likely benign variants as Likely benign and Pathogenic/Likely pathogenic variants as Likely pathogenic.

Variant type	Pathogenic	Likely pathogenic	VUS	Likely benign	Benign	Sum
synonymous						0
missense			23	1		24
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	23	1	0

Variants in DHRS9

This is a list of pathogenic ClinVar variants found in the DHRS9 region.

You can filter this list by clicking the number of variants in the Variants pathogenicity by type table.

Position	Type	Phenotype	Significance	ClinVar
2-169081603-C-T		not specified	Uncertain significance (Dec 11, 2023)
2-169081644-A-T		not specified	Uncertain significance (Jul 14, 2024)
2-169081718-C-T		not specified	Uncertain significance (Aug 05, 2024)
2-169081783-G-C		not specified	Uncertain significance (Aug 10, 2021)
2-169081830-T-G		not specified	Uncertain significance (Oct 25, 2024)
2-169081883-T-C		not specified	Uncertain significance (Jun 02, 2024)
2-169083365-G-T		not specified	Uncertain significance (Jan 19, 2022)
2-169083367-G-A		not specified	Uncertain significance (Dec 22, 2023)
2-169083376-C-T		not specified	Uncertain significance (Jun 06, 2023)
2-169083416-T-C		not specified	Uncertain significance (Oct 30, 2023)
2-169083418-G-A		not specified	Uncertain significance (Mar 18, 2024)
2-169083428-T-C		not specified	Uncertain significance (Dec 04, 2024)
2-169083494-T-A		not specified	Uncertain significance (Aug 22, 2022)
2-169083517-C-T		not specified	Uncertain significance (Apr 06, 2023)
2-169083526-A-T		not specified	Likely benign (Sep 01, 2021)
2-169083569-G-T		not specified	Uncertain significance (Jan 04, 2024)
2-169083573-C-G		not specified	Uncertain significance (Nov 17, 2022)
2-169091792-G-A		not specified	Uncertain significance (Jul 30, 2023)
2-169091803-G-A		not specified	Uncertain significance (Mar 18, 2024)
2-169091818-G-A		not specified	Uncertain significance (Jul 15, 2021)
2-169091827-A-G		not specified	Uncertain significance (Jun 01, 2023)
2-169091858-C-T		not specified	Uncertain significance (Nov 22, 2022)
2-169091887-C-T		not specified	Uncertain significance (Apr 28, 2023)
2-169091888-T-A		not specified	Uncertain significance (Sep 27, 2021)
2-169091890-G-A		not specified	Uncertain significance (Nov 09, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
DHRS9	protein_coding	protein_coding	ENST00000327239	4	31379

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
7.23e-8	0.155	125371	0	369	125740	0.00147

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-1.05	211	172	1.23	0.00000891	2066
Missense in Polyphen		67	53.271	1.2577		608
Synonymous	0.348	63	66.6	0.946	0.00000372	648
Loss of Function	0.0219	11	11.1	0.993	4.65e-7	153

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.00113	0.00113
Ashkenazi Jewish	0.000298	0.000298
East Asian	0.000164	0.000163
Finnish	0.00310	0.00310
European (Non-Finnish)	0.00213	0.00212
Middle Eastern	0.000164	0.000163
South Asian	0.000327	0.000327
Other	0.00229	0.00228

dbNSFP

Source: dbNSFP

• Function: FUNCTION: 3-alpha-hydroxysteroid dehydrogenase that converts 3- alpha-tetrahydroprogesterone (allopregnanolone) to dihydroxyprogesterone and 3-alpha-androstanediol to dihydroxyprogesterone. May play a role in the biosynthesis of retinoic acid from retinaldehyde, but seems to have low activity with retinoids. Can utilize both NADH and NADPH. {ECO:0000269|PubMed:11294878, ECO:0000269|PubMed:11304534, ECO:0000269|PubMed:12618084}.
• Pathway: Retinol metabolism - Homo sapiens (human);Vitamin A Deficiency;Retinol Metabolism;Signaling by GPCR;Signal Transduction;RA biosynthesis pathway;The canonical retinoid cycle in rods (twilight vision);retinol biosynthesis;Signaling by Retinoic Acid;Signaling by Nuclear Receptors;G alpha (i) signalling events;Visual phototransduction;the visual cycle I (vertebrates);GPCR downstream signalling (Consensus)

Recessive Scores

• pRec: 0.138

Intolerance Scores

• loftool: 0.0918
• rvis_EVS: 0.66
• rvis_percentile_EVS: 84.55

Haploinsufficiency Scores

• pHI: 0.165
• hipred: N
• hipred_score: 0.285
• ghis: 0.384

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.101

Gene Damage Prediction

	All	Recessive	Dominant
Mendelian	Medium	Medium	Medium
Primary Immunodeficiency	Medium	Medium	Medium
Cancer	Medium	Medium	Medium

Mouse Genome Informatics

• Gene name: Dhrs9

Zebrafish Information Network

• Gene name: dhrs9
• Affected structure: neural crest cell
• Phenotype tag: abnormal
• Phenotype quality: decreased amount

Gene ontology

• Biological process: androgen metabolic process;epithelial cell differentiation;progesterone metabolic process;retinol metabolic process;9-cis-retinoic acid biosynthetic process;oxidation-reduction process
• Cellular component: endoplasmic reticulum membrane;integral component of endoplasmic reticulum membrane;organelle membrane
• Molecular function: alcohol dehydrogenase (NAD) activity;retinol dehydrogenase activity;racemase and epimerase activity;testosterone dehydrogenase (NAD+) activity