SBSN

suprabasin

Basic information

Region (hg38): 19:35523367-35528351

Links

ENSG00000189001 ∙ NCBI:374897 ∙ OMIM:609969 ∙ HGNC:24950 ∙ Uniprot:Q6UWP8 ∙ 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 SBSN gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the SBSN 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			34	4		38
nonsense						0
start loss						0
frameshift						0
inframe indel				1		1
splice donor/acceptor (+/-2bp)						0
splice region					1	1
non coding						0
Total	0	0	34	6	0

Variants in SBSN

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

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

Position	Type	Phenotype	Significance	ClinVar
19-35523539-A-G			Benign (Feb 26, 2018)
19-35526706-C-T		not specified	Uncertain significance (Dec 03, 2021)
19-35526750-T-C		not specified	Uncertain significance (Jul 16, 2021)
19-35526771-T-A		not specified	Uncertain significance (Jan 17, 2023)
19-35526773-G-T		not specified	Uncertain significance (Dec 27, 2023)
19-35526806-C-A		not specified	Uncertain significance (Nov 07, 2022)
19-35526810-G-A		not specified	Uncertain significance (Oct 02, 2023)
19-35526855-G-A		not specified	Likely benign (Dec 06, 2021)
19-35526855-G-T		not specified	Uncertain significance (Dec 31, 2023)
19-35527008-T-C		not specified	Likely benign (May 08, 2023)
19-35527027-C-A		not specified	Uncertain significance (Jun 22, 2021)
19-35527027-C-G		not specified	Uncertain significance (May 16, 2024)
19-35527036-C-T		not specified	Uncertain significance (Jan 19, 2024)
19-35527054-G-C		not specified	Uncertain significance (Sep 14, 2022)
19-35527197-C-T		not specified	Uncertain significance (Jan 23, 2023)
19-35527213-C-T		not specified	Uncertain significance (Jan 23, 2024)
19-35527218-T-G		not specified	Uncertain significance (Apr 06, 2023)
19-35527222-C-T		not specified	Uncertain significance (Oct 13, 2023)
19-35527227-T-C		not specified	Uncertain significance (Mar 15, 2024)
19-35527261-T-C		not specified	Likely benign (Aug 16, 2021)
19-35527293-C-T		not specified	Likely benign (Aug 17, 2021)
19-35527318-C-T		not specified	Uncertain significance (Sep 21, 2021)
19-35527339-C-T		not specified	Uncertain significance (Nov 09, 2022)
19-35527424-A-G			Likely benign (Aug 01, 2022)
19-35527452-T-G		not specified	Uncertain significance (Dec 20, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
SBSN	protein_coding	protein_coding	ENST00000452271	4	4985

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.00000624	0.898	125730	0	18	125748	0.0000716

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.588	298	328	0.909	0.0000178	3860
Missense in Polyphen		108	132.89	0.81272		1480
Synonymous	-0.463	149	142	1.05	0.00000929	1154
Loss of Function	1.58	11	18.3	0.601	8.90e-7	209

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000119	0.000119
Ashkenazi Jewish	0.00	0.00
East Asian	0.000177	0.000163
Finnish	0.0000462	0.0000462
European (Non-Finnish)	0.0000808	0.0000791
Middle Eastern	0.000177	0.000163
South Asian	0.0000653	0.0000653
Other	0.00	0.00

dbNSFP

Source: dbNSFP

Recessive Scores

• pRec: 0.0981

Intolerance Scores

• loftool: 0.523
• rvis_EVS: 2
• rvis_percentile_EVS: 97.66

Haploinsufficiency Scores

• pHI: 0.111
• hipred: N
• hipred_score: 0.212

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.114

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Sbsn

Gene ontology

• Biological process: biological_process
• Cellular component: extracellular exosome
• Molecular function: molecular_function