SEC14L6

SEC14 like lipid binding 6, the group of SEC14 family

Basic information

Region (hg38): 22:30522799-30546741

Links

ENSG00000214491 ∙ NCBI:730005 ∙ ∙ HGNC:40047 ∙ Uniprot:B5MCN3 ∙ 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 SEC14L6 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the SEC14L6 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			49	4		53
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	49	4	0

Variants in SEC14L6

This is a list of pathogenic ClinVar variants found in the SEC14L6 region.

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

Position	Type	Phenotype	Significance	ClinVar
22-30525045-C-G		not specified	Uncertain significance (Oct 05, 2023)
22-30525050-C-G		not specified	Uncertain significance (Sep 23, 2023)
22-30525070-G-T		not specified	Uncertain significance (Oct 04, 2024)
22-30525082-C-G		not specified	Uncertain significance (Dec 19, 2022)
22-30525091-T-C		not specified	Uncertain significance (Feb 10, 2025)
22-30525355-C-T		not specified	Uncertain significance (Sep 27, 2024)
22-30525356-C-T		not specified	Uncertain significance (Nov 23, 2024)
22-30525359-C-T		not specified	Uncertain significance (Feb 25, 2025)
22-30525376-A-C		not specified	Likely benign (Oct 27, 2023)
22-30525379-C-A		not specified	Uncertain significance (Mar 01, 2024)
22-30525392-C-G		not specified	Uncertain significance (Apr 09, 2024)
22-30525395-T-A		not specified	Likely benign (Mar 07, 2025)
22-30525395-T-C		not specified	Uncertain significance (Nov 08, 2022)
22-30525415-C-T		not specified	Uncertain significance (Dec 25, 2024)
22-30525430-G-A		not specified	Uncertain significance (Jul 07, 2024)
22-30525451-C-T		not specified	Uncertain significance (Jul 25, 2023)
22-30525452-G-A		not specified	Uncertain significance (May 14, 2024)
22-30525487-C-T		not specified	Uncertain significance (Oct 27, 2022)
22-30525497-C-G		not specified	Uncertain significance (Jun 28, 2024)
22-30525626-G-A		not specified	Uncertain significance (Apr 04, 2024)
22-30525629-A-G		not specified	Uncertain significance (Dec 16, 2022)
22-30525633-G-T		not specified	Uncertain significance (May 09, 2023)
22-30525665-C-T		not specified	Uncertain significance (Aug 16, 2021)
22-30525666-G-A		not specified	Uncertain significance (Oct 01, 2024)
22-30525683-T-G		not specified	Uncertain significance (Oct 01, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
SEC14L6	protein_coding	protein_coding	ENST00000402034	12	23884

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
2.46e-8	0.719	125677	0	58	125735	0.000231

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.283	215	227	0.947	0.0000132	2584
Missense in Polyphen		52	62.037	0.83821		859
Synonymous	1.10	81	94.7	0.856	0.00000597	745
Loss of Function	1.34	15	21.7	0.690	9.29e-7	256

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000868	0.0000868
Ashkenazi Jewish	0.00	0.00
East Asian	0.00240	0.00239
Finnish	0.00	0.00
European (Non-Finnish)	0.0000179	0.0000176
Middle Eastern	0.00240	0.00239
South Asian	0.000264	0.000261
Other	0.000164	0.000163

dbNSFP

Source: dbNSFP

Haploinsufficiency Scores

• hipred: N
• hipred_score: 0.139
• ghis: 0.409

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: 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