SLC16A9

solute carrier family 16 member 9, the group of Solute carrier family 16

Basic information

Region (hg38): 10:59650763-59736002

Previous symbols: [ "C10orf36" ]

Links

ENSG00000165449 ∙ NCBI:220963 ∙ OMIM:614242 ∙ HGNC:23520 ∙ Uniprot:Q7RTY1 ∙ 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 SLC16A9 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the SLC16A9 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					1	1
missense			26		1	27
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	26	0	2

Variants in SLC16A9

This is a list of pathogenic ClinVar variants found in the SLC16A9 region.

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

Position	Type	Phenotype	Significance	ClinVar
10-59652777-C-T		not specified	Uncertain significance (May 09, 2023)
10-59652801-A-C			Benign (Oct 13, 2017)
10-59652827-T-G		not specified	Uncertain significance (Oct 13, 2021)
10-59652852-G-T		not specified	Uncertain significance (Nov 09, 2022)
10-59652860-G-A		not specified	Uncertain significance (Jun 22, 2023)
10-59652921-C-A		not specified	Uncertain significance (Apr 25, 2022)
10-59653739-G-C			Benign (Oct 13, 2017)
10-59653761-G-A		not specified	Uncertain significance (Jan 10, 2022)
10-59653791-C-A		not specified	Uncertain significance (Oct 02, 2023)
10-59653830-G-C		not specified	Uncertain significance (Feb 24, 2023)
10-59653878-C-T		not specified	Uncertain significance (Feb 13, 2024)
10-59654005-A-G		not specified	Uncertain significance (Jun 07, 2024)
10-59654046-A-G		not specified	Uncertain significance (Jun 09, 2022)
10-59654071-C-T		not specified	Uncertain significance (Sep 12, 2023)
10-59654074-T-C		not specified	Uncertain significance (Jun 03, 2022)
10-59654226-G-A		not specified	Uncertain significance (Apr 04, 2024)
10-59654259-T-A		not specified	Uncertain significance (May 28, 2024)
10-59654280-T-C		not specified	Uncertain significance (Aug 12, 2021)
10-59654314-A-G		not specified	Uncertain significance (Apr 13, 2022)
10-59654344-G-T		not specified	Uncertain significance (Sep 07, 2022)
10-59654391-G-C		not specified	Likely benign (Jun 17, 2024)
10-59654416-G-A		not specified	Uncertain significance (Mar 15, 2024)
10-59654442-T-C		not specified	Uncertain significance (Sep 22, 2023)
10-59654475-C-T		not specified	Uncertain significance (Aug 08, 2023)
10-59654541-A-G		not specified	Uncertain significance (Jun 04, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
SLC16A9	protein_coding	protein_coding	ENST00000395348	5	85238

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.00708	0.990	125728	0	20	125748	0.0000795

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.701	232	264	0.879	0.0000129	3282
Missense in Polyphen		78	95.562	0.81622		1147
Synonymous	-0.334	110	106	1.04	0.00000592	1029
Loss of Function	2.58	7	19.2	0.364	9.00e-7	261

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000177	0.000177
Ashkenazi Jewish	0.00	0.00
East Asian	0.0000544	0.0000544
Finnish	0.00	0.00
European (Non-Finnish)	0.0000979	0.0000967
Middle Eastern	0.0000544	0.0000544
South Asian	0.0000984	0.0000980
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Proton-linked monocarboxylate transporter. May catalyze the transport of monocarboxylates across the plasma membrane. {ECO:0000250}.
• Pathway: Glycosphingolipid metabolism;Glycerophospholipid metabolism (Consensus)

Recessive Scores

• pRec: 0.120

Intolerance Scores

• loftool: 0.458
• rvis_EVS: 0.49
• rvis_percentile_EVS: 79.38

Haploinsufficiency Scores

• pHI: 0.186
• hipred: Y
• hipred_score: 0.616
• ghis: 0.397

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.333

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Slc16a9

Gene ontology

• Biological process: monocarboxylic acid transport;urate metabolic process;transmembrane transport
• Cellular component: integral component of plasma membrane
• Molecular function: protein binding;monocarboxylic acid transmembrane transporter activity;symporter activity