SLC35E1

solute carrier family 35 member E1, the group of Solute carrier family 35

Basic information

Region (hg38): 19:16549830-16572415

Links

ENSG00000127526 ∙ NCBI:79939 ∙ ∙ HGNC:20803 ∙ Uniprot:Q96K37 ∙ 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 SLC35E1 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the SLC35E1 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			24	2		26
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	24	2	0

Variants in SLC35E1

This is a list of pathogenic ClinVar variants found in the SLC35E1 region.

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

Position	Type	Phenotype	Significance	ClinVar
19-16553729-T-C		not specified	Uncertain significance (Jan 04, 2024)
19-16553762-G-A		not specified	Uncertain significance (Oct 20, 2021)
19-16553780-C-T		not specified	Uncertain significance (Dec 05, 2022)
19-16553781-G-C		not specified	Uncertain significance (Mar 21, 2024)
19-16553801-C-T		not specified	Uncertain significance (Apr 20, 2023)
19-16553807-G-A		not specified	Uncertain significance (Sep 20, 2023)
19-16553828-G-A		not specified	Uncertain significance (Sep 21, 2021)
19-16553900-C-T		not specified	Uncertain significance (Jun 10, 2022)
19-16555199-C-T		not specified	Uncertain significance (Feb 17, 2023)
19-16555270-T-C		not specified	Uncertain significance (Aug 02, 2021)
19-16555277-C-T		not specified	Uncertain significance (May 04, 2022)
19-16555391-C-T		not specified	Uncertain significance (May 13, 2022)
19-16566576-A-T		not specified	Uncertain significance (Aug 16, 2022)
19-16566589-A-T		not specified	Uncertain significance (Aug 02, 2022)
19-16568060-A-C		not specified	Uncertain significance (May 06, 2022)
19-16568114-T-C		not specified	Uncertain significance (Feb 13, 2023)
19-16571540-A-G		not specified	Uncertain significance (Aug 02, 2022)
19-16571976-A-G		not specified	Uncertain significance (Oct 29, 2021)
19-16571983-C-T		not specified	Uncertain significance (Jul 06, 2021)
19-16572014-G-C		not specified	Uncertain significance (Oct 25, 2022)
19-16572070-A-G		not specified	Likely benign (Apr 07, 2023)
19-16572078-T-C		not specified	Uncertain significance (May 16, 2022)
19-16572085-T-C		not specified	Likely benign (Apr 07, 2023)
19-16572112-C-T		not specified	Uncertain significance (Jan 02, 2024)
19-16572282-G-A		not specified	Uncertain significance (Nov 09, 2022)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
SLC35E1	protein_coding	protein_coding	ENST00000595753	6	22552

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.127	0.868	125736	0	12	125748	0.0000477

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	1.48	165	228	0.724	0.0000140	2623
Missense in Polyphen		33	76.224	0.43293		932
Synonymous	0.532	99	106	0.934	0.00000730	884
Loss of Function	2.49	4	14.1	0.285	6.84e-7	156

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000149	0.000149
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.00	0.00
European (Non-Finnish)	0.0000617	0.0000615
Middle Eastern	0.00	0.00
South Asian	0.0000327	0.0000327
Other	0.00	0.00

dbNSFP

Source: dbNSFP

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

Recessive Scores

• pRec: 0.124

Intolerance Scores

• loftool: 0.0999
• rvis_EVS: -0.63
• rvis_percentile_EVS: 17.03

Haploinsufficiency Scores

• pHI: 0.165
• hipred: N
• hipred_score: 0.399
• ghis: 0.665

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.470

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Slc35e1

Gene ontology

• Cellular component: Golgi apparatus;integral component of membrane
• Molecular function: antiporter activity;transmembrane transporter activity