SLC35E2B

solute carrier family 35 member E2B, the group of Solute carrier family 35

Basic information

Region (hg38): 1:1659529-1692795

Links

ENSG00000189339 ∙ NCBI:728661 ∙ OMIM:619315 ∙ HGNC:33941 ∙ Uniprot:P0CK96 ∙ 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 SLC35E2B gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the SLC35E2B 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						0
missense			33	5		38
nonsense			1			1
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region				1		1
non coding						0
Total	0	0	34	5	0

Variants in SLC35E2B

This is a list of pathogenic ClinVar variants found in the SLC35E2B region.

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

Position	Type	Phenotype	Significance	ClinVar
1-1665816-G-A		not specified	Uncertain significance (May 09, 2024)
1-1665856-C-T		not specified	Uncertain significance (Dec 08, 2023)
1-1665862-T-G		not specified	Uncertain significance (Oct 05, 2023)
1-1665881-G-C		not specified	Uncertain significance (Jun 11, 2024)
1-1665884-T-A		not specified	Uncertain significance (Nov 02, 2023)
1-1665907-G-C		not specified	Uncertain significance (Apr 07, 2023)
1-1665912-C-T		not specified	Uncertain significance (Jan 20, 2025)
1-1665937-C-T		not specified	Likely benign (Oct 04, 2022)
1-1665942-G-A		not specified	Uncertain significance (Jun 17, 2024)
1-1665944-C-A		not specified	Uncertain significance (Aug 02, 2021)
1-1665960-T-C		not specified	Uncertain significance (Oct 26, 2022)
1-1665970-C-T		not specified	Uncertain significance (Oct 07, 2024)
1-1665976-C-T		not specified	Likely benign (Oct 05, 2023)
1-1665997-C-A		not specified	Uncertain significance (Mar 11, 2024)
1-1665999-T-C		not specified	Uncertain significance (Nov 06, 2023)
1-1666006-C-T		not specified	Uncertain significance (Jan 04, 2022)
1-1666019-G-A		not specified	Likely benign (Dec 15, 2023)
1-1668369-G-A		High myopia	Uncertain significance (Dec 17, 2018)
1-1668376-T-C		not specified	Uncertain significance (Mar 07, 2025)
1-1668441-C-G		not specified	Uncertain significance (Mar 04, 2024)
1-1668448-C-T		not specified	Uncertain significance (Dec 22, 2023)
1-1669678-G-A		not specified	Likely benign (Oct 08, 2024)
1-1669683-G-A		not specified	Uncertain significance (Feb 19, 2025)
1-1669687-C-A		not specified	Uncertain significance (Sep 25, 2024)
1-1671515-A-G		not specified	Uncertain significance (Aug 12, 2021)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
SLC35E2B	protein_coding	protein_coding	ENST00000378662	8	31229

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.00263	0.940	125673	0	4	125677	0.0000159

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.994	162	202	0.803	0.0000127	2569
Missense in Polyphen		62	86.317	0.71828		1074
Synonymous	-0.958	110	97.9	1.12	0.00000749	851
Loss of Function	1.66	6	12.3	0.488	6.56e-7	171

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)	0.0000277	0.0000264
Middle Eastern	0.00	0.00
South Asian	0.0000329	0.0000327
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Putative transporter. {ECO:0000250}.

Intolerance Scores

• rvis_EVS: -0.16
• rvis_percentile_EVS: 41.25

Haploinsufficiency Scores

• hipred: N
• hipred_score: 0.328
• ghis: 0.603

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: Slc35e2

Gene ontology

• Biological process: blastocyst hatching
• Cellular component: Golgi apparatus;integral component of membrane
• Molecular function: pyrimidine nucleotide-sugar transmembrane transporter activity;antiporter activity;transmembrane transporter activity