ST8SIA5

ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 5, the group of Sialyltransferases

Basic information

Region (hg38): 18:46667821-46759257

Previous symbols: [ "SIAT8E" ]

Links

ENSG00000101638 ∙ NCBI:29906 ∙ OMIM:607162 ∙ HGNC:17827 ∙ Uniprot:O15466 ∙ 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 ST8SIA5 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the ST8SIA5 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					2	2
missense			18		1	19
nonsense			1			1
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	19	0	3

Variants in ST8SIA5

This is a list of pathogenic ClinVar variants found in the ST8SIA5 region.

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

Position	Type	Phenotype	Significance	ClinVar
18-46680100-A-T		not specified	Uncertain significance (Aug 12, 2021)
18-46680137-C-T		not specified	Uncertain significance (Jun 22, 2024)
18-46680173-T-G		not specified	Uncertain significance (May 06, 2024)
18-46680195-C-T		not specified	Uncertain significance (Apr 26, 2024)
18-46680196-A-G		not specified	Uncertain significance (Dec 21, 2023)
18-46680260-G-C		not specified	Uncertain significance (Nov 07, 2023)
18-46680305-G-T		not specified	Uncertain significance (Mar 07, 2024)
18-46680320-C-A		not specified	Uncertain significance (Aug 02, 2021)
18-46680329-G-C		not specified	Uncertain significance (Dec 14, 2023)
18-46680337-G-A		not specified	Uncertain significance (Jan 30, 2024)
18-46680341-G-A		not specified	Uncertain significance (Sep 07, 2022)
18-46680364-G-A		not specified	Uncertain significance (Sep 01, 2021)
18-46680389-T-G		not specified	Uncertain significance (Jan 31, 2023)
18-46680404-C-T		not specified	Uncertain significance (Jul 20, 2021)
18-46680424-T-C		not specified	Uncertain significance (Jun 06, 2023)
18-46680461-C-A		not specified	Uncertain significance (Aug 01, 2022)
18-46680493-T-C		not specified	Uncertain significance (Sep 01, 2021)
18-46686187-C-T		not specified	Uncertain significance (Feb 17, 2022)
18-46686209-G-T			Uncertain significance (Jun 01, 2019)
18-46686213-C-T			Benign (Jan 30, 2018)
18-46686271-G-A		not specified	Uncertain significance (Apr 12, 2023)
18-46688859-A-C			Benign (Jan 30, 2018)
18-46688894-C-T		not specified	Uncertain significance (Oct 17, 2023)
18-46688895-G-A			Benign (Jan 30, 2018)
18-46756385-T-C		not specified	Uncertain significance (Sep 22, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
ST8SIA5	protein_coding	protein_coding	ENST00000315087	7	80140

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.000564	0.976	125695	0	53	125748	0.000211

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.896	205	244	0.839	0.0000157	2473
Missense in Polyphen		82	97.958	0.8371		931
Synonymous	0.690	98	107	0.915	0.00000772	719
Loss of Function	2.00	8	16.9	0.474	7.19e-7	204

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000297	0.000297
Ashkenazi Jewish	0.00179	0.00179
East Asian	0.0000544	0.0000544
Finnish	0.00	0.00
European (Non-Finnish)	0.000150	0.000149
Middle Eastern	0.0000544	0.0000544
South Asian	0.000263	0.000261
Other	0.000164	0.000163

dbNSFP

Source: dbNSFP

• Function: FUNCTION: May be involved in the synthesis of gangliosides GD1c, GT1a, GQ1b and GT3 from GD1a, GT1b, GM1b and GD3 respectively. {ECO:0000269|PubMed:9199191}.
• Pathway: Glycosphingolipid biosynthesis - ganglio series - Homo sapiens (human);Ganglio Sphingolipid Metabolism;Post-translational protein modification;Metabolism of proteins;Sialic acid metabolism;Synthesis of substrates in N-glycan biosythesis;Biosynthesis of the N-glycan precursor (dolichol lipid-linked oligosaccharide, LLO) and transfer to a nascent protein;Asparagine N-linked glycosylation (Consensus)

Recessive Scores

• pRec: 0.101

Intolerance Scores

• loftool: 0.470
• rvis_EVS: -0.2
• rvis_percentile_EVS: 38.82

Haploinsufficiency Scores

• pHI: 0.176
• hipred: Y
• hipred_score: 0.538
• ghis: 0.556

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.369

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: St8sia5

Gene ontology

• Biological process: carbohydrate metabolic process;protein glycosylation;glycosphingolipid biosynthetic process;sialylation
• Cellular component: Golgi membrane;integral component of membrane
• Molecular function: alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity;protein binding;sialyltransferase activity