PPP1R7

protein phosphatase 1 regulatory subunit 7, the group of Protein phosphatase 1 regulatory subunits

Basic information

Region (hg38): 2:241149576-241183652

Links

ENSG00000115685 ∙ NCBI:5510 ∙ OMIM:602877 ∙ HGNC:9295 ∙ Uniprot:Q15435 ∙ 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 PPP1R7 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the PPP1R7 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					1	1
missense			13			13
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	0	1

Variants in PPP1R7

This is a list of pathogenic ClinVar variants found in the PPP1R7 region.

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

Position	Type	Phenotype	Significance	ClinVar
2-241153485-G-A		not specified	Uncertain significance (Feb 26, 2025)
2-241153505-G-A		not specified	Uncertain significance (Jun 16, 2024)
2-241153508-G-A		not specified	Uncertain significance (Dec 06, 2024)
2-241153571-G-C		not specified	Uncertain significance (Jun 11, 2021)
2-241153577-G-A		not specified	Uncertain significance (Dec 31, 2024)
2-241153583-C-T		not specified	Uncertain significance (Jan 24, 2025)
2-241153584-G-C		not specified	Uncertain significance (Oct 29, 2024)
2-241153584-G-T		not specified	Uncertain significance (Jan 03, 2024)
2-241159219-T-A		not specified	Uncertain significance (Jan 27, 2025)
2-241159219-T-C		not specified	Uncertain significance (Dec 31, 2023)
2-241159246-A-G		not specified	Uncertain significance (Aug 17, 2021)
2-241160369-G-A		not specified	Uncertain significance (Oct 20, 2021)
2-241160387-A-G		not specified	Uncertain significance (Jan 24, 2025)
2-241160432-A-G		not specified	Uncertain significance (May 01, 2022)
2-241163370-C-T		not specified	Uncertain significance (Oct 12, 2024)
2-241163376-C-T		not specified	Uncertain significance (Dec 01, 2022)
2-241169821-A-G		not specified	Uncertain significance (Jul 26, 2021)
2-241182683-G-A		not specified	Uncertain significance (Nov 08, 2024)
2-241182715-A-G			Benign (Apr 23, 2018)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
PPP1R7	protein_coding	protein_coding	ENST00000234038	10	34077

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.995	0.00542	125745	0	2	125747	0.00000795

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	1.86	138	215	0.643	0.0000130	2394
Missense in Polyphen		33	68.958	0.47855		868
Synonymous	0.592	84	91.2	0.921	0.00000584	665
Loss of Function	3.93	1	19.9	0.0503	0.00000100	234

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.00	0.00
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.0000462	0.0000462
European (Non-Finnish)	0.00000879	0.00000879
Middle Eastern	0.00	0.00
South Asian	0.00	0.00
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Regulatory subunit of protein phosphatase 1. {ECO:0000250}.
• Pathway: miR-targeted genes in epithelium - TarBase;miR-targeted genes in lymphocytes - TarBase;miR-targeted genes in muscle cell - TarBase;miR-targeted genes in squamous cell - TarBase (Consensus)

Recessive Scores

• pRec: 0.100

Intolerance Scores

• rvis_EVS: -0.09
• rvis_percentile_EVS: 46.74

Haploinsufficiency Scores

• pHI: 0.0833
• hipred: Y
• hipred_score: 0.714
• ghis: 0.544

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: E
• essential_gene_gene_trap: E
• gene_indispensability_pred: E
• gene_indispensability_score: 0.877

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Ppp1r7

Gene ontology

• Biological process: biological_process;positive regulation of protein dephosphorylation;regulation of phosphoprotein phosphatase activity
• Cellular component: nucleus;chromosome;cytoplasm;extracellular exosome
• Molecular function: protein binding;protein phosphatase regulator activity;enzyme regulator activity