TRIM16L

tripartite motif containing 16 like

Basic information

Region (hg38): 17:18722237-18735460

Links

ENSG00000108448 ∙ NCBI:147166 ∙ ∙ HGNC:32670 ∙ Uniprot:Q309B1 ∙ 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 TRIM16L gene.

• Inborn genetic diseases (19 variants)

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the TRIM16L 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						0
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)			1			1
splice region						0
non coding			17	1		18
Total	0	0	18	1	0

Variants in TRIM16L

This is a list of pathogenic ClinVar variants found in the TRIM16L region.

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

Position	Type	Phenotype	Significance	ClinVar
17-18727609-A-G		not specified	Uncertain significance (Apr 12, 2023)
17-18727624-G-A		not specified	Uncertain significance (Jan 29, 2024)
17-18727661-T-C		not specified	Uncertain significance (Oct 06, 2021)
17-18727724-T-A		not specified	Uncertain significance (Oct 07, 2024)
17-18727741-A-G		not specified	Uncertain significance (Jun 25, 2024)
17-18727742-C-T		not specified	Uncertain significance (Jan 08, 2024)
17-18731071-A-G		not specified	Uncertain significance (Apr 19, 2023)
17-18731115-G-A		not specified	Uncertain significance (Feb 27, 2024)
17-18731155-A-G		not specified	Uncertain significance (May 16, 2024)
17-18731178-C-T		not specified	Uncertain significance (Feb 21, 2024)
17-18732042-A-G		not specified	Uncertain significance (Dec 13, 2022)
17-18732057-C-T		not specified	Uncertain significance (Sep 02, 2024)
17-18732063-T-A		not specified	Uncertain significance (Aug 29, 2022)
17-18732068-G-A		not specified	Uncertain significance (Dec 14, 2023)
17-18732071-A-G		not specified	Likely benign (Aug 02, 2023)
17-18732080-C-T		not specified	Uncertain significance (Sep 17, 2021)
17-18734901-C-T		not specified	Uncertain significance (Mar 27, 2023)
17-18734919-A-G		not specified	Uncertain significance (Dec 12, 2022)
17-18734924-C-T		not specified	Uncertain significance (Oct 22, 2021)
17-18734925-G-C		not specified	Uncertain significance (Oct 25, 2024)
17-18734942-C-T		not specified	Uncertain significance (Aug 22, 2023)
17-18734952-C-A		not specified	Uncertain significance (Oct 12, 2021)
17-18734952-C-T		not specified	Uncertain significance (Jul 06, 2022)
17-18735011-C-T		not specified	Uncertain significance (May 24, 2023)
17-18735038-T-C		not specified	Uncertain significance (Nov 09, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
TRIM16L	protein_coding	protein_coding	ENST00000449552	4	38121

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.00000339	0.582	125660	0	86	125746	0.000342

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-0.140	208	202	1.03	0.0000117	2304
Missense in Polyphen		71	65.281	1.0876		750
Synonymous	-0.838	95	85.2	1.12	0.00000560	649
Loss of Function	0.865	10	13.4	0.745	5.72e-7	167

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000362	0.000362
Ashkenazi Jewish	0.00	0.00
East Asian	0.000163	0.000163
Finnish	0.00103	0.00102
European (Non-Finnish)	0.000410	0.000404
Middle Eastern	0.000163	0.000163
South Asian	0.0000980	0.0000980
Other	0.000654	0.000652

dbNSFP

Source: dbNSFP

Intolerance Scores

• loftool: 0.788
• rvis_EVS: -0.14
• rvis_percentile_EVS: 43.77

Haploinsufficiency Scores

• pHI: 0.0857
• hipred: N
• hipred_score: 0.187
• ghis: 0.399

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

Gene ontology

• Cellular component: cytosol;plasma membrane