ZNF157

zinc finger protein 157, the group of Zinc fingers C2H2-type|Small nucleolar RNA protein coding host genes

Basic information

Region (hg38): X:47370578-47414498

Links

ENSG00000147117 ∙ NCBI:7712 ∙ OMIM:300024 ∙ HGNC:12942 ∙ Uniprot:P51786 ∙ 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 ZNF157 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the ZNF157 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	4	5
missense			25	2	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	25	3	5

Variants in ZNF157

This is a list of pathogenic ClinVar variants found in the ZNF157 region.

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

Position	Type	Phenotype	Significance	ClinVar
X-47370714-C-G		not specified	Uncertain significance (May 18, 2022)
X-47410276-G-C		not specified	Uncertain significance (Sep 27, 2021)
X-47410281-C-T			Benign (Aug 16, 2017)
X-47410282-G-A		not specified	Uncertain significance (Aug 02, 2022)
X-47410290-C-A		not specified	Uncertain significance (Sep 29, 2023)
X-47410331-G-A		not specified	Uncertain significance (Apr 06, 2024)
X-47410340-C-G		not specified	Uncertain significance (Apr 14, 2023)
X-47410351-A-G		not specified	Uncertain significance (May 13, 2024)
X-47410361-A-G		not specified	Uncertain significance (Apr 24, 2024)
X-47410688-G-A			Likely benign (Dec 01, 2022)
X-47412387-G-C			Likely benign (Oct 28, 2017)
X-47412427-T-A		not specified	Uncertain significance (Dec 16, 2021)
X-47412448-G-T		not specified	Uncertain significance (Sep 16, 2021)
X-47412480-A-G		not specified	Uncertain significance (Mar 07, 2024)
X-47412494-A-C		not specified	Uncertain significance (Apr 24, 2024)
X-47412584-T-C		not specified	Uncertain significance (Jun 16, 2023)
X-47412624-A-G		not specified	Uncertain significance (Mar 07, 2024)
X-47412649-C-T			Likely benign (Apr 01, 2023)
X-47412908-T-A		not specified	Uncertain significance (Nov 21, 2022)
X-47412923-C-T		not specified	Uncertain significance (Sep 21, 2021)
X-47412968-G-A		not specified	Uncertain significance (Jul 19, 2023)
X-47412973-A-T		not specified	Uncertain significance (Jun 22, 2023)
X-47412997-G-A			Benign (Apr 03, 2018)
X-47413007-C-T		not specified	Uncertain significance (Jan 08, 2024)
X-47413008-G-A		not specified	Uncertain significance (Apr 17, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
ZNF157	protein_coding	protein_coding	ENST00000377073	4	43723

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.00000967	0.567	125712	12	16	125740	0.000111

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.314	180	192	0.936	0.0000142	3347
Missense in Polyphen		55	61.902	0.88849		1155
Synonymous	0.513	59	64.2	0.919	0.00000446	921
Loss of Function	0.774	9	11.9	0.758	8.92e-7	253

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000481	0.000465
Ashkenazi Jewish	0.00	0.00
East Asian	0.000364	0.000272
Finnish	0.00	0.00
European (Non-Finnish)	0.0000985	0.0000703
Middle Eastern	0.000364	0.000272
South Asian	0.0000529	0.0000327
Other	0.000466	0.000326

dbNSFP

Source: dbNSFP

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

Recessive Scores

• pRec: 0.109

Intolerance Scores

• loftool: 0.787
• rvis_EVS: 0.2
• rvis_percentile_EVS: 67.19

Haploinsufficiency Scores

• pHI: 0.218
• hipred: N
• hipred_score: 0.112

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.149

Gene Damage Prediction

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

Gene ontology

• Biological process: negative 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;metal ion binding