ZNF746

zinc finger protein 746, the group of Zinc fingers C2H2-type

Basic information

Region (hg38): 7:149472696-149497817

Links

ENSG00000181220 ∙ NCBI:155061 ∙ OMIM:613914 ∙ HGNC:21948 ∙ Uniprot:Q6NUN9 ∙ 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 ZNF746 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the ZNF746 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		1
missense			36	3		39
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	36	4	0

Variants in ZNF746

This is a list of pathogenic ClinVar variants found in the ZNF746 region.

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

Position	Type	Phenotype	Significance	ClinVar
7-149474393-CCCG-C			not provided (-)
7-149474406-G-T		not specified	Uncertain significance (Dec 27, 2022)
7-149474416-C-T		not specified	Uncertain significance (Sep 01, 2021)
7-149474427-C-T		not specified	Uncertain significance (Jul 20, 2021)
7-149474458-C-T		not specified	Uncertain significance (Aug 30, 2022)
7-149474473-A-C		not specified	Likely benign (Jun 01, 2023)
7-149474647-G-C			Uncertain significance (Nov 21, 2023)
7-149474836-C-T		not specified	Uncertain significance (Aug 12, 2022)
7-149474845-T-C		not specified	Likely benign (Aug 12, 2022)
7-149474851-T-C		not specified	Likely benign (Aug 12, 2022)
7-149474856-C-T		not specified	Uncertain significance (May 13, 2024)
7-149474871-G-A		not specified	Uncertain significance (May 27, 2022)
7-149474889-G-T		not specified	Uncertain significance (May 03, 2023)
7-149474901-C-T		not specified	Uncertain significance (Sep 13, 2023)
7-149474902-G-A		not specified	Uncertain significance (Apr 24, 2024)
7-149474967-C-T		not specified	Uncertain significance (Dec 19, 2023)
7-149474971-C-T		not specified	Uncertain significance (Dec 08, 2023)
7-149475017-A-C		not specified	Uncertain significance (Aug 02, 2021)
7-149475022-C-T		not specified	Uncertain significance (Sep 20, 2023)
7-149475100-T-G		not specified	Uncertain significance (Nov 28, 2023)
7-149475122-C-T			Likely benign (May 01, 2022)
7-149475132-C-T		not specified	Uncertain significance (Jul 05, 2023)
7-149475147-A-G		not specified	Uncertain significance (Nov 17, 2022)
7-149475186-C-T		not specified	Uncertain significance (Jun 23, 2023)
7-149475337-C-A		not specified	Uncertain significance (Jun 22, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
ZNF746	protein_coding	protein_coding	ENST00000458143	7	25024

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.652	0.348	125735	0	13	125748	0.0000517

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	1.41	329	410	0.803	0.0000281	4120
Missense in Polyphen		172	237.62	0.72386		2455
Synonymous	-0.0352	189	188	1.00	0.0000144	1367
Loss of Function	3.74	5	25.3	0.198	0.00000141	245

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000186	0.000178
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.0000462	0.0000462
European (Non-Finnish)	0.0000472	0.0000439
Middle Eastern	0.00	0.00
South Asian	0.0000672	0.0000653
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Transcription repressor that specifically binds to the 5'-TATTTT[T/G]-3' consensus sequence on promoters and repress transcription of PGC-1-alpha (PPARGC1A), thereby playing a role in regulation of neuron death. {ECO:0000269|PubMed:21376232}.
• Pathway: Gene expression (Transcription);Generic Transcription Pathway;RNA Polymerase II Transcription (Consensus)

Intolerance Scores

• loftool: 0.386
• rvis_EVS: -0.33
• rvis_percentile_EVS: 30.74

Haploinsufficiency Scores

• pHI: 0.643
• hipred: Y
• hipred_score: 0.520
• ghis: 0.533

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.985

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Zfp746

Gene ontology

• Biological process: negative regulation of transcription by RNA polymerase II;negative regulation of transcription, DNA-templated;positive regulation of transcription by RNA polymerase II;positive regulation of neuron death
• Cellular component: nucleus;cytoplasm
• Molecular function: RNA polymerase II proximal promoter sequence-specific DNA binding;DNA-binding transcription factor activity, RNA polymerase II-specific;DNA-binding transcription repressor activity, RNA polymerase II-specific;DNA-binding transcription factor activity;protein binding;ubiquitin protein ligase binding;transcription regulatory region DNA binding;metal ion binding