COPRS

coordinator of PRMT5 and differentiation stimulator

Basic information

Region (hg38): 17:31851871-31859291

Previous symbols: [ "C17orf79" ]

Links

ENSG00000172301 ∙ NCBI:55352 ∙ ∙ HGNC:28848 ∙ Uniprot:Q9NQ92 ∙ 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 COPRS gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the COPRS 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			17			17
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	17	0	0

Variants in COPRS

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

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

Position	Type	Phenotype	Significance	ClinVar
17-31852154-G-C		not specified	Uncertain significance (Jun 17, 2024)
17-31852294-G-C		not specified	Uncertain significance (Sep 27, 2022)
17-31852306-C-A		not specified	Uncertain significance (Jan 14, 2025)
17-31852820-T-C		not specified	Uncertain significance (Jan 02, 2024)
17-31852824-C-T		not specified	Uncertain significance (Nov 30, 2022)
17-31852865-A-G		not specified	Uncertain significance (Jan 21, 2025)
17-31852881-C-T		not specified	Uncertain significance (Sep 27, 2022)
17-31852917-A-G		not specified	Uncertain significance (May 02, 2024)
17-31852989-C-T		not specified	Uncertain significance (Aug 20, 2024)
17-31853006-T-C		not specified	Uncertain significance (Mar 15, 2024)
17-31856837-C-T		not specified	Uncertain significance (Oct 04, 2024)
17-31859118-C-T		not specified	Uncertain significance (Nov 09, 2024)
17-31859132-G-A		not specified	Uncertain significance (Dec 08, 2023)
17-31859153-G-A		not specified	Uncertain significance (Oct 19, 2024)
17-31859160-C-T		not specified	Uncertain significance (Aug 04, 2024)
17-31859163-C-A		not specified	Uncertain significance (Dec 13, 2021)
17-31859168-T-G		not specified	Uncertain significance (Mar 03, 2025)
17-31859178-C-A		not specified	Uncertain significance (Sep 07, 2022)
17-31859193-G-A		not specified	Uncertain significance (Mar 30, 2024)
17-31859194-G-T		not specified	Uncertain significance (Sep 08, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
COPRS	protein_coding	protein_coding	ENST00000302362	4	7474

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.253	0.722	125742	0	5	125747	0.0000199

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.0231	85	85.6	0.993	0.00000449	1215
Missense in Polyphen		42	35.876	1.1707		482
Synonymous	0.306	27	29.1	0.928	0.00000162	340
Loss of Function	1.88	2	7.57	0.264	3.92e-7	90

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000616	0.0000615
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.00	0.00
European (Non-Finnish)	0.0000265	0.0000264
Middle Eastern	0.00	0.00
South Asian	0.0000327	0.0000327
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Histone-binding protein required for histone H4 methyltransferase activity of PRMT5. Specifically required for histone H4 'Arg-3' methylation mediated by PRMT5, but not histone H3 'Arg-8' methylation, suggesting that it modulates the substrate specificity of PRMT5. Specifically interacts with the N-terminus of histone H4 but not with histone H3, suggesting that it acts by promoting the association between histone H4 and PRMT5. Involved in CCNE1 promoter repression. Plays a role in muscle cell differentiation by modulating the recruitment of PRMT5 to the promoter of genes involved in the coordination between cell cycle exit and muscle differentiation (By similarity). {ECO:0000250, ECO:0000269|PubMed:18404153}.
• Pathway: RMTs methylate histone arginines;Chromatin modifying enzymes;Chromatin organization (Consensus)

Recessive Scores

• pRec: 0.0630

Intolerance Scores

• rvis_EVS: 0.1
• rvis_percentile_EVS: 61.28

Haploinsufficiency Scores

• pHI: 0.0308
• hipred: Y
• hipred_score: 0.507
• ghis: 0.463

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: S
• 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: Coprs
• Phenotype: cellular phenotype; adipose tissue phenotype (the observable morphological and physiological characteristics of mammalian fat tissue that are manifested through development and lifespan)

Gene ontology

• Biological process: muscle organ development;histone H4-R3 methylation
• Cellular component: nucleus;nucleoplasm;cytosol;plasma membrane
• Molecular function: protein binding;histone binding