QPRT

quinolinate phosphoribosyltransferase

Basic information

Region (hg38): 16:29663279-29698699

Links

ENSG00000103485 ∙ NCBI:23475 ∙ OMIM:606248 ∙ HGNC:9755 ∙ Uniprot:Q15274 ∙ 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 QPRT gene.

• not_specified (40 variants)

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the QPRT gene is commonly pathogenic or not. These statistics are base on transcript: NM_000014298.6. Only rare variants are included in the table.

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.

Effect	Pathogenic	Likely pathogenic	VUS	Likely benign	Benign	Sum
synonymous				1		1
missense			38	1		39
nonsense						0
start loss						0
frameshift						0
splice donor/acceptor (+/-2bp)						0
Total	0	0	38	2	0

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
QPRT	protein_coding	protein_coding	ENST00000395384	4	35421

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.00470	0.888	125666	0	39	125705	0.000155

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	1.12	148	192	0.772	0.0000123	1868
Missense in Polyphen		67	87.384	0.76673		893
Synonymous	0.0669	96	96.8	0.991	0.00000727	681
Loss of Function	1.37	5	9.58	0.522	4.95e-7	97

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000239	0.000214
Ashkenazi Jewish	0.00	0.00
East Asian	0.000111	0.000109
Finnish	0.0000462	0.0000462
European (Non-Finnish)	0.0000633	0.0000616
Middle Eastern	0.000111	0.000109
South Asian	0.000793	0.000784
Other	0.000166	0.000163

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Involved in the catabolism of quinolinic acid (QA). {ECO:0000269|PubMed:17868694}.
• Pathway: Nicotinate and nicotinamide metabolism - Homo sapiens (human);Nicotinate and Nicotinamide Metabolism;NAD Biosynthesis II (from tryptophan);NAD+ biosynthetic pathways;Metabolism;Nicotinate Nicotinamide metabolism;Nicotinate metabolism;Metabolism of water-soluble vitamins and cofactors;Metabolism of vitamins and cofactors;NAD biosynthesis from 2-amino-3-carboxymuconate semialdehyde;NAD <i>de novo</i> biosynthesis;Tryptophan degradation;superpathway of tryptophan utilization (Consensus)

Recessive Scores

• pRec: 0.179

Intolerance Scores

• rvis_EVS: 0.53
• rvis_percentile_EVS: 80.73

Haploinsufficiency Scores

• pHI: 0.180
• hipred: N
• hipred_score: 0.312
• ghis: 0.416

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.964

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Qprt

Gene ontology

• Biological process: NAD biosynthetic process;NAD metabolic process;quinolinate catabolic process;protein complex oligomerization
• Cellular component: cytoplasm;cytosol;extracellular exosome
• Molecular function: nicotinate-nucleotide diphosphorylase (carboxylating) activity;protein binding;protein homodimerization activity