TBC1D26

TBC1 domain family member 26

Basic information

Region (hg38): 17:15732247-15746162

Links

ENSG00000214946 ∙ NCBI:353149 ∙ ∙ HGNC:28745 ∙ Uniprot:Q86UD7 ∙ 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 TBC1D26 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the TBC1D26 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			13	1		14
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	13	3	0

Variants in TBC1D26

This is a list of pathogenic ClinVar variants found in the TBC1D26 region.

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

Position	Type	Phenotype	Significance	ClinVar
17-15737497-C-T		not specified	Uncertain significance (May 17, 2023)
17-15738004-G-T		not specified	Uncertain significance (Oct 20, 2021)
17-15738019-G-A		not specified	Uncertain significance (Apr 19, 2023)
17-15738065-G-A			Likely benign (Jun 01, 2022)
17-15738068-C-G		not specified	Uncertain significance (Dec 14, 2021)
17-15738320-G-A		not specified	Uncertain significance (Jan 26, 2022)
17-15738326-G-A		not specified	Likely benign (May 22, 2023)
17-15738346-G-C		not specified	Uncertain significance (Feb 17, 2023)
17-15738349-A-G		not specified	Uncertain significance (Dec 16, 2023)
17-15738354-C-G		not specified	Uncertain significance (Apr 09, 2024)
17-15738773-T-C		not specified	Uncertain significance (Jan 30, 2024)
17-15738803-T-G		not specified	Uncertain significance (Jun 01, 2023)
17-15740120-T-A		not specified	Uncertain significance (Feb 05, 2024)
17-15740129-C-A		not specified	Uncertain significance (Jan 12, 2024)
17-15741156-C-T		not specified	Uncertain significance (Aug 23, 2021)
17-15741159-C-T		not specified	Uncertain significance (Jul 30, 2023)
17-15741970-C-T		not specified	Likely benign (May 11, 2022)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
TBC1D26	protein_coding	protein_coding	ENST00000437605	9	13916

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.0000109	0.819	125319	0	17	125336	0.0000678

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.0623	133	135	0.985	0.00000760	1610
Missense in Polyphen		24	28.807	0.83314		411
Synonymous	-0.472	58	53.6	1.08	0.00000308	461
Loss of Function	1.32	10	15.6	0.640	7.09e-7	196

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000116	0.000116
Ashkenazi Jewish	0.00	0.00
East Asian	0.0000556	0.0000544
Finnish	0.00	0.00
European (Non-Finnish)	0.0000797	0.0000793
Middle Eastern	0.0000556	0.0000544
South Asian	0.0000980	0.0000980
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: May act as a GTPase-activating protein for Rab family protein(s). {ECO:0000305}.

Intolerance Scores

• loftool: 0.630
• rvis_EVS: 1.28
• rvis_percentile_EVS: 93.77

Haploinsufficiency Scores

• pHI: 0.0756
• hipred: N
• hipred_score: 0.431

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.0170

Gene Damage Prediction

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

Gene ontology

• Biological process: intracellular protein transport;activation of GTPase activity
• Cellular component: cell
• Molecular function: GTPase activator activity;Rab GTPase binding