ARHGAP19

Rho GTPase activating protein 19, the group of Rho GTPase activating proteins

Basic information

Region (hg38): 10:97222173-97292673

Links

ENSG00000213390 ∙ NCBI:84986 ∙ OMIM:611587 ∙ HGNC:23724 ∙ Uniprot:Q14CB8 ∙ 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 ARHGAP19 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the ARHGAP19 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			27	1		28
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	27	1	0

Variants in ARHGAP19

This is a list of pathogenic ClinVar variants found in the ARHGAP19 region.

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

Position	Type	Phenotype	Significance	ClinVar
10-97229200-G-A		not specified	Uncertain significance (May 03, 2023)
10-97229783-C-T		not specified	Uncertain significance (Jul 27, 2024)
10-97229804-A-G		not specified	Uncertain significance (Nov 13, 2024)
10-97235249-C-T		not specified	Uncertain significance (Jan 23, 2023)
10-97235255-T-C		not specified	Uncertain significance (Apr 01, 2024)
10-97235281-C-A		not specified	Uncertain significance (Dec 01, 2022)
10-97235285-C-T		not specified	Uncertain significance (Aug 20, 2024)
10-97235306-G-C		not specified	Uncertain significance (May 20, 2024)
10-97243975-A-G		not specified	Uncertain significance (Nov 21, 2022)
10-97244015-C-T		not specified	Uncertain significance (Aug 21, 2023)
10-97244047-G-A		not specified	Uncertain significance (Dec 09, 2023)
10-97244060-T-C		not specified	Uncertain significance (Aug 16, 2022)
10-97244090-G-A		not specified	Uncertain significance (May 14, 2024)
10-97244120-A-G		not specified	Uncertain significance (Dec 04, 2024)
10-97246280-C-A		not specified	Uncertain significance (Feb 17, 2022)
10-97246304-G-A			Likely benign (Apr 01, 2023)
10-97246305-C-G		not specified	Uncertain significance (Aug 13, 2021)
10-97246309-C-A		not specified	Uncertain significance (May 02, 2024)
10-97256323-A-G		not specified	Uncertain significance (Jan 31, 2024)
10-97259523-C-T		not specified	Uncertain significance (Jul 14, 2021)
10-97259575-G-A		not specified	Uncertain significance (Mar 21, 2023)
10-97259581-T-C		not specified	Uncertain significance (Jun 22, 2021)
10-97263440-T-C		not specified	Uncertain significance (Nov 13, 2024)
10-97263451-A-C		not specified	Uncertain significance (Aug 04, 2023)
10-97263468-C-T		not specified	Uncertain significance (Nov 20, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
ARHGAP19	protein_coding	protein_coding	ENST00000358531	12	73418

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
1.42e-12	0.323	125644	1	103	125748	0.000414

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.341	257	273	0.942	0.0000146	3243
Missense in Polyphen		68	80.724	0.84237		961
Synonymous	1.39	83	101	0.824	0.00000527	943
Loss of Function	1.15	22	28.6	0.768	0.00000170	320

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000598	0.000597
Ashkenazi Jewish	0.0000992	0.0000992
East Asian	0.000707	0.000707
Finnish	0.000185	0.000185
European (Non-Finnish)	0.000388	0.000387
Middle Eastern	0.000707	0.000707
South Asian	0.000916	0.000882
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: GTPase activator for the Rho-type GTPases by converting them to an inactive GDP-bound state. {ECO:0000250}.
• Pathway: Signal Transduction;Rho GTPase cycle;Signaling by Rho GTPases (Consensus)

Intolerance Scores

• loftool: 0.913
• rvis_EVS: 0.35
• rvis_percentile_EVS: 74.49

Haploinsufficiency Scores

• pHI: 0.575
• hipred: N
• hipred_score: 0.370
• ghis: 0.525

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.610

Mouse Genome Informatics

• Gene name: Arhgap19
• Phenotype: normal phenotype

Gene ontology

• Biological process: signal transduction;positive regulation of GTPase activity;regulation of small GTPase mediated signal transduction
• Cellular component: nucleus;cytoplasm;cytosol;plasma membrane;intracellular membrane-bounded organelle
• Molecular function: GTPase activator activity