ZNF430

zinc finger protein 430, the group of Zinc fingers C2H2-type

Basic information

Region (hg38): 19:21020634-21060050

Links

ENSG00000118620 ∙ NCBI:80264 ∙ ∙ HGNC:20808 ∙ Uniprot:Q9H8G1 ∙ 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 ZNF430 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the ZNF430 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			24			24
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	24	0	0

Variants in ZNF430

This is a list of pathogenic ClinVar variants found in the ZNF430 region.

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

Position	Type	Phenotype	Significance	ClinVar
19-21033493-C-T		not specified	Uncertain significance (Oct 13, 2023)
19-21033519-A-G		not specified	Uncertain significance (Jun 16, 2024)
19-21033530-G-C		not specified	Uncertain significance (Sep 22, 2023)
19-21034161-A-G		not specified	Uncertain significance (Aug 09, 2021)
19-21034179-C-T		not specified	Uncertain significance (Apr 25, 2023)
19-21056682-A-G		not specified	Uncertain significance (Nov 08, 2022)
19-21056807-C-G		not specified	Uncertain significance (Dec 22, 2023)
19-21056832-A-G		not specified	Uncertain significance (Sep 09, 2021)
19-21057107-G-A		not specified	Uncertain significance (Apr 18, 2023)
19-21057152-A-T		not specified	Uncertain significance (Oct 05, 2022)
19-21057224-A-G		not specified	Uncertain significance (Dec 17, 2023)
19-21057290-C-T		not specified	Uncertain significance (May 20, 2024)
19-21057323-C-T		not specified	Uncertain significance (Jun 01, 2023)
19-21057338-C-A		not specified	Uncertain significance (Dec 01, 2022)
19-21057345-A-G		not specified	Uncertain significance (Mar 16, 2024)
19-21057498-G-C		not specified	Uncertain significance (Aug 17, 2022)
19-21057528-G-T		not specified	Uncertain significance (May 10, 2023)
19-21057531-A-T		not specified	Uncertain significance (Mar 17, 2023)
19-21057539-A-T		not specified	Uncertain significance (Jan 23, 2023)
19-21057541-T-A		not specified	Uncertain significance (Dec 28, 2022)
19-21057579-C-G		not specified	Uncertain significance (Dec 15, 2023)
19-21057710-C-T		not specified	Uncertain significance (Dec 03, 2021)
19-21057711-G-A		not specified	Uncertain significance (Apr 12, 2022)
19-21057870-C-G		not specified	Uncertain significance (Jan 02, 2024)
19-21057921-A-G		not specified	Uncertain significance (Nov 07, 2022)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
ZNF430	protein_coding	protein_coding	ENST00000261560	5	39431

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.00862	0.813	125629	0	3	125632	0.0000119

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.835	246	286	0.861	0.0000131	3749
Missense in Polyphen		33	61.528	0.53634		915
Synonymous	0.719	92	101	0.909	0.00000470	997
Loss of Function	1.06	4	7.03	0.569	2.95e-7	90

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000616	0.0000615
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.00	0.00
European (Non-Finnish)	0.00000909	0.00000880
Middle Eastern	0.00	0.00
South Asian	0.0000341	0.0000327
Other	0.00	0.00

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: 0.607
• rvis_EVS: 0.67
• rvis_percentile_EVS: 84.61

Haploinsufficiency Scores

• pHI: 0.172
• hipred: N
• hipred_score: 0.112
• ghis: 0.487

Essentials

• essential_gene_CRISPR: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.246

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;substantia nigra development
• Cellular component: nucleus
• Molecular function: DNA-binding transcription factor activity, RNA polymerase II-specific;DNA binding;metal ion binding