ZNF23

zinc finger protein 23, the group of Zinc fingers C2H2-type

Basic information

Region (hg38): 16:71447597-71463095

Previous symbols: [ "ZNF359" ]

Links

ENSG00000167377 ∙ NCBI:7571 ∙ OMIM:194527 ∙ HGNC:13023 ∙ Uniprot:P17027 ∙ AlphaFold ∙ GenCC ∙ jax ∙ Sfari ∙ GnomAD ∙ Pubmed ∙ ClinVar

Phenotypes

GenCC

Source: genCC

• Tourette syndrome (No Known Disease Relationship), mode of inheritance: Unknown

ClinVar

This is a list of variants' phenotypes submitted to ClinVar and linked to the ZNF23 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the ZNF23 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			27	1		28
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	27	1	0

Variants in ZNF23

This is a list of pathogenic ClinVar variants found in the ZNF23 region.

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

Position	Type	Phenotype	Significance	ClinVar
16-71448256-C-T		not specified	Uncertain significance (Feb 24, 2022)
16-71448272-C-T		not specified	Uncertain significance (Jun 23, 2023)
16-71448296-G-A		not specified	Uncertain significance (Aug 02, 2022)
16-71448361-G-A		not specified	Uncertain significance (Jun 07, 2024)
16-71448385-T-G		not specified	Uncertain significance (Apr 18, 2023)
16-71448412-T-G		not specified	Uncertain significance (May 22, 2023)
16-71448430-A-C		not specified	Uncertain significance (Mar 15, 2024)
16-71448493-T-C		not specified	Uncertain significance (Jan 05, 2022)
16-71448538-C-T		not specified	Uncertain significance (Jan 05, 2022)
16-71448551-G-C		not specified	Uncertain significance (Mar 24, 2023)
16-71448583-C-T		not specified	Uncertain significance (May 31, 2023)
16-71448610-C-G		not specified	Uncertain significance (Jun 07, 2023)
16-71448613-G-C		not specified	Uncertain significance (Apr 20, 2024)
16-71448631-C-T		not specified	Likely benign (Nov 13, 2023)
16-71448632-G-A		not specified	Uncertain significance (Jul 05, 2023)
16-71448634-A-G		not specified	Uncertain significance (Jun 07, 2023)
16-71448661-T-C		not specified	Uncertain significance (Nov 23, 2021)
16-71448733-C-T		not specified	Uncertain significance (Feb 27, 2024)
16-71448934-T-C		not specified	Uncertain significance (Aug 11, 2022)
16-71448944-C-G		not specified	Uncertain significance (Apr 23, 2024)
16-71448994-C-G		not specified	Uncertain significance (Sep 01, 2021)
16-71449119-G-C		not specified	Uncertain significance (Oct 26, 2022)
16-71449201-G-A		not specified	Uncertain significance (Mar 11, 2022)
16-71449241-T-C		not specified	Uncertain significance (Mar 29, 2022)
16-71449369-C-T		not specified	Uncertain significance (Jan 17, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
ZNF23	protein_coding	protein_coding	ENST00000393539	3	15499

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
1.08e-7	0.791	125683	0	65	125748	0.000258

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.357	313	331	0.945	0.0000155	4329
Missense in Polyphen		118	122.77	0.96112		1587
Synonymous	0.200	117	120	0.977	0.00000592	1099
Loss of Function	1.42	14	21.0	0.666	9.66e-7	324

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000861	0.000861
Ashkenazi Jewish	0.000198	0.000198
East Asian	0.000498	0.000489
Finnish	0.00	0.00
European (Non-Finnish)	0.0000793	0.0000791
Middle Eastern	0.000498	0.000489
South Asian	0.000621	0.000621
Other	0.000163	0.000163

dbNSFP

Source: dbNSFP

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

Recessive Scores

• pRec: 0.0966

Intolerance Scores

• loftool: 0.817
• rvis_EVS: -0.4
• rvis_percentile_EVS: 26.85

Haploinsufficiency Scores

• pHI: 0.689
• hipred: N
• hipred_score: 0.215
• ghis: 0.576

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.00453

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Zfp612

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;protein binding;metal ion binding