ZFP28

ZFP28 zinc finger protein, the group of Zinc fingers C2H2-type

Basic information

Region (hg38): 19:56538948-56556808

Links

ENSG00000196867 ∙ NCBI:140612 ∙ OMIM:616798 ∙ HGNC:17801 ∙ Uniprot:Q8NHY6 ∙ 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 ZFP28 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the ZFP28 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			66	4		70
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	66	4	0

Variants in ZFP28

This is a list of pathogenic ClinVar variants found in the ZFP28 region.

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

Position	Type	Phenotype	Significance	ClinVar
19-56539023-G-C		not specified	Uncertain significance (Apr 20, 2024)
19-56539026-G-T		not specified	Uncertain significance (Sep 17, 2021)
19-56539028-G-T		not specified	Uncertain significance (Dec 25, 2024)
19-56539032-C-A		not specified	Uncertain significance (Jun 06, 2023)
19-56539032-C-T		not specified	Uncertain significance (Jun 29, 2022)
19-56539053-C-G		not specified	Uncertain significance (Sep 01, 2021)
19-56539058-C-A		not specified	Uncertain significance (Sep 29, 2022)
19-56539059-C-A		not specified	Uncertain significance (Jul 19, 2023)
19-56539076-G-A		not specified	Uncertain significance (Oct 06, 2021)
19-56539080-C-T		not specified	Uncertain significance (Apr 22, 2024)
19-56539083-G-A		not specified	Uncertain significance (Apr 23, 2024)
19-56539086-C-G		not specified	Uncertain significance (Oct 22, 2021)
19-56539086-C-T		not specified	Uncertain significance (Jan 17, 2024)
19-56539092-C-G			Uncertain significance (Apr 22, 2024)
19-56539149-G-C		not specified	Uncertain significance (Nov 14, 2024)
19-56539161-G-C		not specified	Uncertain significance (Mar 20, 2023)
19-56539175-C-T		not specified	Uncertain significance (Apr 18, 2024)
19-56539208-A-G		not specified	Uncertain significance (Jan 09, 2025)
19-56539209-C-A		not specified	Uncertain significance (Aug 30, 2022)
19-56539214-C-T		not specified	Uncertain significance (Jan 27, 2022)
19-56539630-C-T		not specified	Uncertain significance (Sep 12, 2023)
19-56539642-A-G		not specified	Uncertain significance (Mar 16, 2022)
19-56539655-A-C		not specified	Uncertain significance (Jan 16, 2025)
19-56539658-A-G		not specified	Uncertain significance (Nov 09, 2024)
19-56539709-T-C		not specified	Uncertain significance (Jul 23, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
ZFP28	protein_coding	protein_coding	ENST00000301318	8	17853

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.000219	1.00	125723	0	24	125747	0.0000954

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	1.11	387	453	0.854	0.0000220	5686
Missense in Polyphen		104	186.36	0.55806		2369
Synonymous	-1.01	186	169	1.10	0.00000841	1619
Loss of Function	3.59	13	36.3	0.358	0.00000187	463

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000578	0.0000578
Ashkenazi Jewish	0.00	0.00
East Asian	0.000330	0.000326
Finnish	0.00	0.00
European (Non-Finnish)	0.000115	0.000114
Middle Eastern	0.000330	0.000326
South Asian	0.0000655	0.0000653
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: 0.0884

Intolerance Scores

• loftool: 0.700
• rvis_EVS: 0.05
• rvis_percentile_EVS: 57.52

Haploinsufficiency Scores

• pHI: 0.189
• hipred: N
• hipred_score: 0.198
• ghis: 0.470

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.0441

Gene Damage Prediction

	All	Recessive	Dominant
Mendelian	High	High	High
Primary Immunodeficiency	High	High	High
Cancer	High	High	High

Mouse Genome Informatics

• Gene name: Zfp28

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