DCTN6

dynactin subunit 6, the group of Dynactin subunits

Basic information

Region (hg38): 8:30156319-30183639

Links

ENSG00000104671 ∙ NCBI:10671 ∙ OMIM:612963 ∙ HGNC:16964 ∙ Uniprot:O00399 ∙ 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 DCTN6 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the DCTN6 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			8			8
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	8	0	0

Variants in DCTN6

This is a list of pathogenic ClinVar variants found in the DCTN6 region.

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

Position	Type	Phenotype	Significance	ClinVar
8-30175150-G-A		not specified	Uncertain significance (Jun 03, 2022)
8-30175172-A-G		not specified	Uncertain significance (Mar 15, 2024)
8-30175174-G-T		not specified	Uncertain significance (May 05, 2023)
8-30177136-A-G		not specified	Uncertain significance (Dec 13, 2023)
8-30180536-C-T		not specified	Uncertain significance (May 23, 2024)
8-30180565-A-G		not specified	Uncertain significance (Aug 28, 2023)
8-30180584-T-C		not specified	Uncertain significance (Jun 24, 2022)
8-30180604-C-T		not specified	Uncertain significance (Mar 17, 2023)
8-30180607-C-T		not specified	Uncertain significance (Feb 26, 2024)
8-30180608-G-A		not specified	Uncertain significance (Jan 10, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
DCTN6	protein_coding	protein_coding	ENST00000221114	7	27344

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.0557	0.927	125669	0	72	125741	0.000286

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.540	93	109	0.854	0.00000576	1246
Missense in Polyphen		15	28.887	0.51926		338
Synonymous	1.48	25	36.3	0.688	0.00000191	361
Loss of Function	2.08	4	11.7	0.343	6.74e-7	125

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000414	0.000414
Ashkenazi Jewish	0.00	0.00
East Asian	0.0000544	0.0000544
Finnish	0.0000929	0.0000924
European (Non-Finnish)	0.000479	0.000475
Middle Eastern	0.0000544	0.0000544
South Asian	0.0000984	0.0000980
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Pathway: Vasopressin-regulated water reabsorption - Homo sapiens (human);Vesicle-mediated transport;lissencephaly gene (lis1) in neuronal migration and development;Membrane Trafficking;Post-translational protein modification;Metabolism of proteins;Transport to the Golgi and subsequent modification;Asparagine N-linked glycosylation;COPI-independent Golgi-to-ER retrograde traffic;Golgi-to-ER retrograde transport;COPI-mediated anterograde transport;ER to Golgi Anterograde Transport;Intra-Golgi and retrograde Golgi-to-ER traffic (Consensus)

Recessive Scores

• pRec: 0.156

Intolerance Scores

• loftool: 0.330
• rvis_EVS: -0.14
• rvis_percentile_EVS: 42.88

Haploinsufficiency Scores

• pHI: 0.229
• hipred: N
• hipred_score: 0.492
• ghis: 0.637

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: E
• essential_gene_gene_trap: H
• gene_indispensability_pred: E
• gene_indispensability_score: 0.942

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Dctn6

Gene ontology

• Biological process: endoplasmic reticulum to Golgi vesicle-mediated transport;antigen processing and presentation of exogenous peptide antigen via MHC class II
• Cellular component: condensed chromosome kinetochore;centrosome;cytosol;dynactin complex