CUEDC2

CUE domain containing 2

Basic information

Region (hg38): 10:102423245-102432584

Previous symbols: [ "C10orf66" ]

Links

ENSG00000107874 ∙ NCBI:79004 ∙ OMIM:614142 ∙ HGNC:28352 ∙ Uniprot:Q9H467 ∙ 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 CUEDC2 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the CUEDC2 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			21	1		22
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	21	1	0

Variants in CUEDC2

This is a list of pathogenic ClinVar variants found in the CUEDC2 region.

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

Position	Type	Phenotype	Significance	ClinVar
10-102423485-C-T		not specified	Uncertain significance (Jun 21, 2021)
10-102423500-G-A		not specified	Uncertain significance (Jun 09, 2022)
10-102423530-T-C		not specified	Uncertain significance (Oct 11, 2024)
10-102423676-C-T		not specified	Uncertain significance (Feb 15, 2023)
10-102423677-G-A		not specified	Uncertain significance (Apr 17, 2024)
10-102423698-C-A		not specified	Uncertain significance (Sep 25, 2024)
10-102423700-C-T		not specified	Uncertain significance (Nov 13, 2024)
10-102423820-G-T		not specified	Uncertain significance (Jan 09, 2024)
10-102423849-C-T		not specified	Uncertain significance (Apr 19, 2023)
10-102423853-G-A		not specified	Uncertain significance (Dec 19, 2022)
10-102424102-T-C		not specified	Uncertain significance (Aug 28, 2024)
10-102424140-A-C		not specified	Uncertain significance (Mar 20, 2024)
10-102424169-C-T		not specified	Likely benign (Jun 17, 2024)
10-102424269-C-T		not specified	Uncertain significance (Sep 29, 2023)
10-102424270-T-G		not specified	Uncertain significance (Nov 08, 2022)
10-102424328-C-T		not specified	Uncertain significance (Mar 07, 2024)
10-102424329-G-A		not specified	Uncertain significance (Feb 20, 2025)
10-102424340-T-G		not specified	Uncertain significance (Nov 30, 2022)
10-102424662-C-T		not specified	Uncertain significance (Oct 27, 2022)
10-102424700-G-A		not specified	Uncertain significance (Dec 17, 2021)
10-102424707-T-A		not specified	Uncertain significance (Dec 09, 2023)
10-102425122-C-T		not specified	Uncertain significance (Nov 14, 2024)
10-102425163-G-A		not specified	Uncertain significance (Dec 25, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
CUEDC2	protein_coding	protein_coding	ENST00000369937	8	9417

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.0608	0.936	124784	0	7	124791	0.0000280

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	1.38	117	167	0.700	0.00000937	1881
Missense in Polyphen		34	62.647	0.54272		759
Synonymous	0.482	63	68.1	0.926	0.00000405	559
Loss of Function	2.59	5	16.3	0.307	8.71e-7	176

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	0.0000464	0.0000464
European (Non-Finnish)	0.0000355	0.0000353
Middle Eastern	0.00	0.00
South Asian	0.0000327	0.0000327
Other	0.000166	0.000165

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Down-regulates ESR1 protein levels through the ubiquitination-proteasome pathway, regardless of the presence of 17 beta-estradiol. Also involved in 17 beta-estradiol-induced ESR1 degradation. Controls PGR protein levels through a similar mechanism. {ECO:0000269|PubMed:17347654, ECO:0000269|PubMed:21572428}.
• Disease: DISEASE: Note=May predict the clinical outcome of tamoxifen therapy of breast cancer patients. Patients with tumors that highly express CUEDC2 do not respond to tamoxifen treatment as effectively as those with tumors with low expression.
• Pathway: Regulation of toll-like receptor signaling pathway (Consensus)

Recessive Scores

• pRec: 0.108

Intolerance Scores

• loftool: 0.352
• rvis_EVS: 0.26
• rvis_percentile_EVS: 70.06

Haploinsufficiency Scores

• pHI: 0.260
• hipred: Y
• hipred_score: 0.661
• ghis: 0.415

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.993

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Cuedc2

Gene ontology

• Biological process: negative regulation of macrophage cytokine production;negative regulation of cytokine production involved in inflammatory response
• Cellular component: nucleoplasm;cytosol;nuclear membrane
• Molecular function: protein binding