ZFP62

ZFP62 zinc finger protein, the group of Zinc fingers C2H2-type

Basic information

Region (hg38): 5:180847611-180861285

Links

ENSG00000196670 ∙ NCBI:643836 ∙ OMIM:610281 ∙ HGNC:23241 ∙ Uniprot:Q8NB50 ∙ 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 ZFP62 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the ZFP62 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	2
missense			43	2		45
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	43	3	1

Variants in ZFP62

This is a list of pathogenic ClinVar variants found in the ZFP62 region.

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

Position	Type	Phenotype	Significance	ClinVar
5-180848809-T-A		not specified	Uncertain significance (Mar 18, 2024)
5-180848815-C-T		not specified	Likely benign (Jun 29, 2023)
5-180848946-T-C		not specified	Uncertain significance (Aug 02, 2022)
5-180849325-G-A		not specified	Uncertain significance (Mar 15, 2024)
5-180849411-T-G		not specified	Uncertain significance (May 26, 2022)
5-180849489-C-T		not specified	Uncertain significance (Dec 20, 2022)
5-180849519-C-T		not specified	Uncertain significance (Jul 11, 2023)
5-180849553-C-T		not specified	Uncertain significance (Jul 09, 2021)
5-180849690-C-T		not specified	Uncertain significance (Oct 06, 2021)
5-180849718-C-T		not specified	Uncertain significance (Nov 30, 2022)
5-180849784-T-G		not specified	Uncertain significance (Feb 28, 2023)
5-180849788-T-C			Benign (Aug 02, 2017)
5-180849798-C-A		not specified	Uncertain significance (Aug 28, 2023)
5-180849850-T-C		not specified	Uncertain significance (Dec 20, 2023)
5-180849919-T-A		not specified	Uncertain significance (Apr 28, 2022)
5-180849981-T-C		not specified	Uncertain significance (Jul 19, 2022)
5-180850023-C-G		not specified	Uncertain significance (May 24, 2023)
5-180850026-G-C		not specified	Uncertain significance (Apr 10, 2023)
5-180850029-C-T		not specified	Uncertain significance (Jul 27, 2022)
5-180850071-T-C		not specified	Uncertain significance (Jun 24, 2022)
5-180850162-C-T		not specified	Uncertain significance (Jun 24, 2022)
5-180850177-T-C		not specified	Uncertain significance (Nov 23, 2021)
5-180850223-C-G		not specified	Uncertain significance (Aug 17, 2022)
5-180850270-C-T		not specified	Uncertain significance (Dec 14, 2023)
5-180850315-T-C		not specified	Uncertain significance (Jun 30, 2022)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
ZFP62	protein_coding	protein_coding	ENST00000502412	2	13676

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.575	0.425	118870	0	1	118871	0.00000421

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	2.15	337	468	0.720	0.0000226	6001
Missense in Polyphen		217	319.75	0.67866		4069
Synonymous	1.24	153	174	0.881	0.00000849	1574
Loss of Function	3.64	5	24.4	0.205	0.00000128	416

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000692	0.0000692
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.00	0.00
European (Non-Finnish)	0.00	0.00
Middle Eastern	0.00	0.00
South Asian	0.00	0.00
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: May play a role in differentiating skeletal muscle. {ECO:0000250}.

Intolerance Scores

• rvis_EVS: 0.46
• rvis_percentile_EVS: 78.46

Haploinsufficiency Scores

• hipred: N
• hipred_score: 0.170
• ghis: 0.488

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.291

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Zfp62

Gene ontology

• Biological process: regulation of transcription by RNA polymerase II
• Cellular component: nucleus
• Molecular function: DNA-binding transcription factor activity, RNA polymerase II-specific;nucleic acid binding;metal ion binding