ZFP64

ZFP64 zinc finger protein, the group of Zinc fingers C2H2-type

Basic information

Region (hg38): 20:52051663-52204308

Previous symbols: [ "ZNF338" ]

Links

ENSG00000020256 ∙ NCBI:55734 ∙ OMIM:618111 ∙ HGNC:15940 ∙ Uniprot:Q9NTW7 ∙ 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 ZFP64 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the ZFP64 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			82	1		83
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	82	1	0

Variants in ZFP64

This is a list of pathogenic ClinVar variants found in the ZFP64 region.

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

Position	Type	Phenotype	Significance	ClinVar
20-52084586-C-G		not specified	Uncertain significance (Jan 22, 2025)
20-52084642-G-A		not specified	Uncertain significance (Jul 19, 2022)
20-52084657-A-C		not specified	Uncertain significance (Jan 08, 2025)
20-52084661-C-G		not specified	Uncertain significance (Jan 08, 2024)
20-52084724-T-C		not specified	Uncertain significance (May 17, 2023)
20-52084727-C-G		not specified	Uncertain significance (Dec 27, 2023)
20-52084736-C-T		not specified	Uncertain significance (Apr 22, 2022)
20-52084753-C-T		not specified	Uncertain significance (Nov 25, 2024)
20-52084787-G-C		not specified	Uncertain significance (May 15, 2024)
20-52084810-C-G		not specified	Uncertain significance (Jul 14, 2024)
20-52084817-T-G		not specified	Uncertain significance (Mar 04, 2025)
20-52084833-G-T		not specified	Uncertain significance (Jan 22, 2025)
20-52084849-T-C		not specified	Uncertain significance (Dec 23, 2024)
20-52084852-T-G		not specified	Uncertain significance (Sep 20, 2023)
20-52084917-G-T		not specified	Uncertain significance (Jun 07, 2024)
20-52084953-G-C		not specified	Uncertain significance (Sep 24, 2024)
20-52084958-G-A		not specified	Uncertain significance (Mar 28, 2024)
20-52085024-C-T		not specified	Uncertain significance (Aug 01, 2024)
20-52085107-A-T		not specified	Uncertain significance (Dec 10, 2024)
20-52085114-T-C		not specified	Uncertain significance (Jul 25, 2024)
20-52085242-A-G		not specified	Uncertain significance (Aug 20, 2024)
20-52088518-C-T		not specified	Uncertain significance (Jan 26, 2025)
20-52088537-G-T		not specified	Uncertain significance (Jun 05, 2023)
20-52088563-T-A		not specified	Uncertain significance (Jun 24, 2022)
20-52098458-G-A		not specified	Uncertain significance (Aug 28, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
ZFP64	protein_coding	protein_coding	ENST00000216923	6	152646

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.000165	0.994	125733	0	15	125748	0.0000596

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	1.94	315	428	0.736	0.0000278	4507
Missense in Polyphen		112	194.18	0.57679		2227
Synonymous	-0.118	185	183	1.01	0.0000135	1324
Loss of Function	2.42	10	22.4	0.447	0.00000105	258

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000185	0.000185
Ashkenazi Jewish	0.00	0.00
East Asian	0.0000545	0.0000544
Finnish	0.000159	0.000139
European (Non-Finnish)	0.0000530	0.0000527
Middle Eastern	0.0000545	0.0000544
South Asian	0.0000654	0.0000653
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: May be involved in transcriptional regulation.

Recessive Scores

• pRec: 0.116

Intolerance Scores

• loftool: 0.420
• rvis_EVS: 0.45
• rvis_percentile_EVS: 78.04

Haploinsufficiency Scores

• pHI: 0.609
• hipred: Y
• hipred_score: 0.603
• ghis: 0.529

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.880

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Zfp64

Gene ontology

• Biological process: regulation of transcription by RNA polymerase II;regulation of gene expression
• Cellular component: nucleus;histone methyltransferase complex
• Molecular function: RNA polymerase II core promoter sequence-specific DNA binding;DNA-binding transcription factor activity, RNA polymerase II-specific;DNA binding;protein binding;metal ion binding