ZNF570

zinc finger protein 570, the group of Zinc fingers C2H2-type

Basic information

Region (hg38): 19:37467585-37488652

Links

ENSG00000171827 ∙ NCBI:148268 ∙ ∙ HGNC:26416 ∙ Uniprot:Q96NI8 ∙ 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 ZNF570 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the ZNF570 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
missense			30			30
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	30	1	0

Variants in ZNF570

This is a list of pathogenic ClinVar variants found in the ZNF570 region.

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

Position	Type	Phenotype	Significance	ClinVar
19-37475900-A-G		not specified	Uncertain significance (Dec 15, 2022)
19-37476360-G-A		not specified	Uncertain significance (Feb 05, 2024)
19-37476383-G-A		not specified	Uncertain significance (Oct 24, 2024)
19-37476398-A-G		not specified	Uncertain significance (Mar 04, 2025)
19-37483918-A-G		not specified	Uncertain significance (Jan 17, 2024)
19-37483979-C-G		not specified	Uncertain significance (Dec 07, 2023)
19-37484001-G-C		not specified	Uncertain significance (Sep 28, 2023)
19-37484018-G-C		not specified	Uncertain significance (Nov 22, 2024)
19-37484038-C-G		not specified	Uncertain significance (Feb 21, 2025)
19-37484073-A-T		not specified	Uncertain significance (Jan 03, 2025)
19-37484098-A-T		not specified	Uncertain significance (Feb 12, 2025)
19-37484182-A-G		not specified	Uncertain significance (Nov 21, 2024)
19-37484229-T-A		not specified	Uncertain significance (Feb 23, 2023)
19-37484238-A-G		not specified	Uncertain significance (Nov 13, 2023)
19-37484276-G-C		not specified	Uncertain significance (Dec 25, 2024)
19-37484354-A-G			Likely benign (Apr 01, 2023)
19-37484412-C-T		not specified	Uncertain significance (Sep 22, 2023)
19-37484425-A-G		not specified	Uncertain significance (Dec 06, 2022)
19-37484434-A-G		not specified	Uncertain significance (May 24, 2023)
19-37484541-T-C		not specified	Uncertain significance (Sep 20, 2023)
19-37484545-G-A		not specified	Uncertain significance (Sep 10, 2024)
19-37484582-T-G		not specified	Uncertain significance (Mar 17, 2023)
19-37484588-A-C		not specified	Uncertain significance (Mar 07, 2025)
19-37484596-C-T		not specified	Uncertain significance (Jan 03, 2024)
19-37484647-G-T		not specified	Uncertain significance (Feb 13, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
ZNF570	protein_coding	protein_coding	ENST00000330173	4	17774

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.0000646	0.995	125645	0	101	125746	0.000402

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.983	226	272	0.832	0.0000124	3562
Missense in Polyphen		109	137.36	0.79351		1760
Synonymous	0.579	87	94.2	0.924	0.00000448	928
Loss of Function	2.50	11	24.3	0.453	0.00000126	324

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000558	0.000558
Ashkenazi Jewish	0.00159	0.00159
East Asian	0.000272	0.000272
Finnish	0.000787	0.000786
European (Non-Finnish)	0.000308	0.000308
Middle Eastern	0.000272	0.000272
South Asian	0.000264	0.000261
Other	0.000494	0.000489

dbNSFP

Source: dbNSFP

• Function: FUNCTION: May be involved in transcriptional regulation.
• Pathway: Gene expression (Transcription);Generic Transcription Pathway;RNA Polymerase II Transcription (Consensus)

Intolerance Scores

• loftool: 0.858
• rvis_EVS: -0.09
• rvis_percentile_EVS: 46.74

Haploinsufficiency Scores

• pHI: 0.215
• hipred: N
• hipred_score: 0.197
• ghis: 0.562

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.323

Gene Damage Prediction

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

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;DNA binding;metal ion binding