ZNF878

zinc finger protein 878, the group of Zinc fingers C2H2-type

Basic information

Region (hg38): 19:12043805-12052961

Links

ENSG00000257446 ∙ NCBI:729747 ∙ ∙ HGNC:37246 ∙ Uniprot:C9JN71 ∙ 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 ZNF878 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the ZNF878 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			21			21
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	21	0	0

Variants in ZNF878

This is a list of pathogenic ClinVar variants found in the ZNF878 region.

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

Position	Type	Phenotype	Significance	ClinVar
19-12043816-G-A		not specified	Uncertain significance (Apr 30, 2024)
19-12043840-T-C		not specified	Uncertain significance (Dec 21, 2023)
19-12043975-C-G		not specified	Uncertain significance (Aug 13, 2021)
19-12044005-T-C		not specified	Uncertain significance (Aug 17, 2022)
19-12044133-T-C		not specified	Uncertain significance (May 14, 2024)
19-12044154-G-T		not specified	Uncertain significance (Aug 10, 2021)
19-12044304-G-T		not specified	Uncertain significance (May 13, 2024)
19-12044422-G-A		not specified	Uncertain significance (Apr 25, 2022)
19-12044433-G-C		not specified	Uncertain significance (Nov 09, 2023)
19-12044439-A-T		not specified	Uncertain significance (Nov 09, 2023)
19-12044440-T-C		not specified	Uncertain significance (Jun 29, 2023)
19-12044608-T-G		not specified	Uncertain significance (Jul 08, 2022)
19-12044617-T-C		not specified	Uncertain significance (Jun 16, 2024)
19-12044640-C-T		not specified	Uncertain significance (Jun 11, 2021)
19-12044663-C-A		not specified	Uncertain significance (Dec 18, 2023)
19-12044665-C-T		not specified	Uncertain significance (Mar 06, 2023)
19-12044709-A-T		not specified	Uncertain significance (Aug 20, 2023)
19-12044724-G-T		not specified	Uncertain significance (May 14, 2024)
19-12044811-T-G		not specified	Uncertain significance (Jan 03, 2024)
19-12044874-C-T		not specified	Uncertain significance (Mar 25, 2024)
19-12044908-G-A		not specified	Uncertain significance (Dec 26, 2023)
19-12044925-C-T		not specified	Uncertain significance (Aug 08, 2023)
19-12044926-G-A		not specified	Uncertain significance (Jun 16, 2023)
19-12044988-G-C		not specified	Uncertain significance (May 09, 2023)
19-12045012-A-C		not specified	Uncertain significance (Jan 09, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
ZNF878	protein_coding	protein_coding	ENST00000547628	4	12508

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.0815	0.768	125703	0	3	125706	0.0000119

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.824	233	271	0.859	0.0000129	3518
Missense in Polyphen		73	88.266	0.82704		1197
Synonymous	1.33	77	93.3	0.825	0.00000450	939
Loss of Function	1.05	2	4.37	0.457	1.86e-7	53

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.00	0.00
Ashkenazi Jewish	0.00	0.00
East Asian	0.000109	0.000109
Finnish	0.00	0.00
European (Non-Finnish)	0.00	0.00
Middle Eastern	0.000109	0.000109
South Asian	0.0000327	0.0000327
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: May be involved in transcriptional regulation. {ECO:0000250}.

Intolerance Scores

• loftool: 0.835
• rvis_EVS: 0.42
• rvis_percentile_EVS: 77.16

Haploinsufficiency Scores

• hipred: N
• hipred_score: 0.112

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.114

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Zfp617

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;nucleic acid binding;metal ion binding