ACTRT3

actin related protein T3, the group of Actin related proteins

Basic information

Region (hg38): 3:169766921-169769561

Links

ENSG00000184378 ∙ NCBI:84517 ∙ OMIM:608534 ∙ HGNC:24022 ∙ Uniprot:Q9BYD9 ∙ 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 ACTRT3 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the ACTRT3 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			26	1		27
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	26	1	0

Variants in ACTRT3

This is a list of pathogenic ClinVar variants found in the ACTRT3 region.

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

Position	Type	Phenotype	Significance	ClinVar
3-169767439-C-T		not specified	Uncertain significance (Sep 27, 2021)
3-169767442-C-A		not specified	Uncertain significance (Dec 27, 2023)
3-169767454-A-C		not specified	Uncertain significance (Dec 03, 2024)
3-169767461-G-A		not specified	Uncertain significance (Mar 29, 2022)
3-169767466-A-G		not specified	Uncertain significance (May 10, 2022)
3-169767499-T-C		not specified	Uncertain significance (Sep 03, 2024)
3-169767566-G-C		not specified	Uncertain significance (Apr 22, 2024)
3-169767578-G-C		not specified	Uncertain significance (Oct 30, 2023)
3-169767584-C-T		not specified	Uncertain significance (Aug 18, 2021)
3-169767599-C-A		not specified	Uncertain significance (Mar 20, 2024)
3-169767626-G-A		not specified	Uncertain significance (Aug 30, 2021)
3-169767671-T-C		not specified	Uncertain significance (Jul 19, 2023)
3-169767700-G-A		not specified	Uncertain significance (Jan 08, 2024)
3-169767772-G-T		not specified	Uncertain significance (Dec 21, 2023)
3-169767817-A-G		not specified	Uncertain significance (Jul 28, 2021)
3-169767854-G-C		not specified	Uncertain significance (Sep 26, 2024)
3-169767860-C-G		not specified	Uncertain significance (Aug 28, 2023)
3-169767936-T-A		not specified	Uncertain significance (Feb 12, 2024)
3-169767953-G-A		not specified	Uncertain significance (Jan 31, 2024)
3-169767959-T-C		not specified	Uncertain significance (Jan 03, 2024)
3-169767997-G-A		not specified	Uncertain significance (Nov 13, 2024)
3-169768055-C-G		not specified	Uncertain significance (Apr 07, 2022)
3-169768108-G-A		not specified	Uncertain significance (Dec 03, 2024)
3-169768108-G-T		not specified	Uncertain significance (Apr 11, 2023)
3-169768228-G-A		not specified	Uncertain significance (Apr 22, 2022)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
ACTRT3	protein_coding	protein_coding	ENST00000330368	2	2975

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
3.76e-8	0.108	125728	0	19	125747	0.0000756

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.224	201	210	0.956	0.0000103	2459
Missense in Polyphen		93	98.261	0.94646		1124
Synonymous	1.36	67	82.8	0.810	0.00000426	737
Loss of Function	-0.202	11	10.3	1.07	4.38e-7	128

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000181	0.000181
Ashkenazi Jewish	0.00	0.00
East Asian	0.000119	0.000109
Finnish	0.00	0.00
European (Non-Finnish)	0.0000176	0.0000176
Middle Eastern	0.000119	0.000109
South Asian	0.000330	0.000327
Other	0.000196	0.000163

dbNSFP

Source: dbNSFP

Intolerance Scores

• rvis_EVS: 0.95
• rvis_percentile_EVS: 90.01

Haploinsufficiency Scores

• hipred: N
• hipred_score: 0.167

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Actrt3

Gene ontology

• Cellular component: male germ cell nucleus;cytoplasm;cytoskeleton