SLC22A31

solute carrier family 22 member 31, the group of Solute carrier family 22

Basic information

Region (hg38): 16:89195761-89201651

Links

ENSG00000259803 ∙ NCBI:146429 ∙ ∙ HGNC:27091 ∙ Uniprot:A6NKX4 ∙ 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 SLC22A31 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the SLC22A31 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			45	3	3	51
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	45	3	4

Variants in SLC22A31

This is a list of pathogenic ClinVar variants found in the SLC22A31 region.

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

Position	Type	Phenotype	Significance	ClinVar
16-89196009-T-C		not specified	Uncertain significance (Nov 11, 2024)
16-89196015-G-T		not specified	Uncertain significance (Aug 05, 2024)
16-89196022-C-T		not specified	Uncertain significance (Dec 13, 2021)
16-89196023-G-A			Benign (Nov 06, 2018)
16-89196051-A-G		not specified	Uncertain significance (Dec 25, 2024)
16-89196058-G-C		not specified	Uncertain significance (Feb 14, 2025)
16-89196070-G-C		not specified	Uncertain significance (Jul 27, 2024)
16-89196082-G-A		not specified	Uncertain significance (Jan 23, 2024)
16-89196082-G-C		not specified	Uncertain significance (Sep 27, 2024)
16-89196093-G-A		not specified	Uncertain significance (Aug 05, 2024)
16-89196097-G-A		not specified	Uncertain significance (Jan 07, 2025)
16-89196100-G-A		not specified	Uncertain significance (Aug 05, 2024)
16-89196106-G-A		not specified	Uncertain significance (Aug 16, 2022)
16-89196109-C-G		not specified	Uncertain significance (Jul 22, 2024)
16-89196109-C-T		not specified	Uncertain significance (Jul 17, 2023)
16-89196139-G-C		not specified	Uncertain significance (Aug 27, 2024)
16-89196144-C-T		not specified	Uncertain significance (Nov 20, 2024)
16-89196151-C-G		not specified	Uncertain significance (Dec 19, 2022)
16-89196186-G-C		not specified	Uncertain significance (Sep 16, 2021)
16-89196228-C-T		not specified	Uncertain significance (Oct 29, 2024)
16-89196249-G-A			Benign (Nov 06, 2018)
16-89196298-C-G		not specified	Uncertain significance (Jan 10, 2025)
16-89196301-C-T		not specified	Uncertain significance (Nov 24, 2024)
16-89196305-C-A		not specified	Uncertain significance (Apr 12, 2024)
16-89197307-G-T		not specified	Uncertain significance (Jul 27, 2021)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
SLC22A31	protein_coding	protein_coding	ENST00000562855	10	5667

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
7.91e-11	0.0211	0	0	0	0	0.00

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-0.190	218	210	1.04	0.0000141	3343
Missense in Polyphen		64	60.697	1.0544		1161
Synonymous	-0.141	102	100	1.02	0.00000623	1398
Loss of Function	-0.714	14	11.4	1.23	6.87e-7	197

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.00	0.00
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.00	0.00
European (Non-Finnish)	0.00	0.00
Middle Eastern	0.00	0.00
South Asian	0.00	0.00
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Organic anion transporter that mediates the uptake of ions. {ECO:0000305}.

Essentials

• essential_gene_CRISPR2: S

Gene Damage Prediction

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

Gene ontology

• Biological process: ion transport;transmembrane transport
• Cellular component: integral component of membrane
• Molecular function: transmembrane transporter activity