ZNF133

zinc finger protein 133, the group of Zinc fingers C2H2-type

Basic information

Region (hg38): 20:18288283-18316996

Previous symbols: [ "ZNF150" ]

Links

ENSG00000125846 ∙ NCBI:7692 ∙ OMIM:604075 ∙ HGNC:12917 ∙ Uniprot:P52736 ∙ 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 ZNF133 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the ZNF133 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					2	2
missense			29	1		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	29	1	2

Variants in ZNF133

This is a list of pathogenic ClinVar variants found in the ZNF133 region.

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

Position	Type	Phenotype	Significance	ClinVar
20-18305775-T-A		not specified	Uncertain significance (Jul 06, 2021)
20-18306324-A-G		not specified	Uncertain significance (Nov 21, 2023)
20-18306346-A-G		not specified	Uncertain significance (Aug 08, 2023)
20-18306378-C-G		not specified	Uncertain significance (Sep 07, 2022)
20-18315090-A-G		not specified	Uncertain significance (Mar 18, 2024)
20-18315111-C-T		not specified	Uncertain significance (Jan 16, 2024)
20-18315175-C-G		not specified	Uncertain significance (Mar 30, 2024)
20-18315240-A-G		not specified	Uncertain significance (Sep 01, 2021)
20-18315254-G-A		not specified	Uncertain significance (Jun 22, 2021)
20-18315308-C-T		not specified	Uncertain significance (Apr 22, 2022)
20-18315389-G-A		not specified	Likely benign (Feb 07, 2023)
20-18315399-G-A		not specified	Uncertain significance (Mar 22, 2023)
20-18315431-G-A		not specified	Uncertain significance (Oct 27, 2022)
20-18315501-G-A		not specified	Uncertain significance (Mar 18, 2024)
20-18315593-G-A		not specified	Uncertain significance (Feb 02, 2022)
20-18315606-G-A		not specified	Uncertain significance (Jul 06, 2021)
20-18315616-G-C		not specified	Uncertain significance (Jan 06, 2023)
20-18315623-G-A		not specified	Uncertain significance (Apr 17, 2024)
20-18315645-C-T		not specified	Uncertain significance (Dec 15, 2022)
20-18315716-G-A		not specified	Uncertain significance (Aug 02, 2021)
20-18315746-A-G		not specified	Uncertain significance (Dec 12, 2023)
20-18315944-G-A		not specified	Uncertain significance (Aug 01, 2022)
20-18316126-C-T			Benign (Jan 30, 2018)
20-18316218-A-C		not specified	Uncertain significance (Apr 05, 2023)
20-18316222-G-C		not specified	Uncertain significance (Apr 20, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
ZNF133	protein_coding	protein_coding	ENST00000377671	3	28520

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.00260	0.997	125713	0	28	125741	0.000111

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	2.01	269	379	0.710	0.0000214	4272
Missense in Polyphen		76	152.08	0.49974		1773
Synonymous	1.03	139	155	0.895	0.00000940	1265
Loss of Function	3.01	9	25.3	0.355	0.00000168	266

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000243	0.000242
Ashkenazi Jewish	0.00	0.00
East Asian	0.000163	0.000163
Finnish	0.0000462	0.0000462
European (Non-Finnish)	0.000150	0.000149
Middle Eastern	0.000163	0.000163
South Asian	0.0000327	0.0000327
Other	0.000168	0.000163

dbNSFP

Source: dbNSFP

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

Recessive Scores

• pRec: 0.107

Intolerance Scores

• loftool: 0.689
• rvis_EVS: -0.04
• rvis_percentile_EVS: 50.45

Haploinsufficiency Scores

• pHI: 0.121
• hipred: N
• hipred_score: 0.459
• ghis: 0.536

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.678

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;DNA-binding transcription factor activity;protein binding;metal ion binding