IQCC

IQ motif containing C

Basic information

Region (hg38): 1:32205671-32208682

Links

ENSG00000160051 ∙ NCBI:55721 ∙ ∙ HGNC:25545 ∙ Uniprot:Q4KMZ1 ∙ 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 IQCC gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the IQCC 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				2		2
missense			35	9		44
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	35	11	0

Variants in IQCC

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

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

Position	Type	Phenotype	Significance	ClinVar
1-32205706-A-C		not specified	Uncertain significance (Jan 31, 2024)
1-32205706-A-G		not specified	Uncertain significance (Jan 30, 2024)
1-32205729-G-T		not specified	Likely benign (Dec 03, 2024)
1-32205743-G-A		not specified	Likely benign (Jun 30, 2024)
1-32205838-C-T		not specified	Uncertain significance (Mar 28, 2024)
1-32205856-G-C		not specified	Likely benign (Jul 07, 2024)
1-32205863-A-G		not specified	Uncertain significance (Jan 29, 2024)
1-32205866-G-A		not specified	Uncertain significance (Jul 12, 2023)
1-32205901-C-T		not specified	Uncertain significance (Dec 14, 2024)
1-32205908-G-A		not specified	Uncertain significance (May 11, 2022)
1-32205914-A-T		not specified	Uncertain significance (Feb 05, 2024)
1-32205933-G-A			Likely benign (Jul 01, 2022)
1-32206166-G-A		not specified	Uncertain significance (Jan 14, 2025)
1-32206215-C-A		not specified	Uncertain significance (Jun 13, 2023)
1-32206223-C-G		not specified	Uncertain significance (Apr 08, 2024)
1-32206227-A-C		not specified	Uncertain significance (Feb 05, 2025)
1-32206240-C-G		not specified	Uncertain significance (Nov 17, 2023)
1-32206248-C-A		not specified	Uncertain significance (Sep 26, 2022)
1-32206248-C-T		not specified	Uncertain significance (Feb 28, 2025)
1-32206266-G-A		not specified	Uncertain significance (Jan 22, 2025)
1-32206592-A-C		not specified	Uncertain significance (Jan 02, 2025)
1-32206672-G-A		not specified	Uncertain significance (May 06, 2022)
1-32206713-A-C		not specified	Uncertain significance (Mar 01, 2025)
1-32206732-C-T		not specified	Uncertain significance (Oct 30, 2023)
1-32206741-C-T		not specified	Likely benign (Sep 17, 2021)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
IQCC	protein_coding	protein_coding	ENST00000537469	5	3053

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
4.05e-9	0.350	125672	0	76	125748	0.000302

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-0.316	310	295	1.05	0.0000146	3527
Missense in Polyphen		73	70.491	1.0356		929
Synonymous	-0.623	128	119	1.07	0.00000615	1089
Loss of Function	0.817	15	18.8	0.797	9.79e-7	194

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000924	0.000924
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.0000462	0.0000462
European (Non-Finnish)	0.000369	0.000369
Middle Eastern	0.00	0.00
South Asian	0.000196	0.000196
Other	0.000489	0.000489

dbNSFP

Source: dbNSFP

Intolerance Scores

• loftool: 0.978
• rvis_EVS: 0.0000761
• rvis_percentile_EVS: 53.98

Haploinsufficiency Scores

• pHI: 0.0456
• hipred: N
• hipred_score: 0.123
• ghis: 0.568

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: S
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.00123

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Iqcc