ZNF300

zinc finger protein 300, the group of Zinc fingers C2H2-type

Basic information

Region (hg38): 5:150894392-150904983

Links

ENSG00000145908 ∙ NCBI:91975 ∙ OMIM:612429 ∙ HGNC:13091 ∙ Uniprot:Q96RE9 ∙ 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 ZNF300 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the ZNF300 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			26	1	2	29
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding			1			1
Total	0	0	27	1	4

Variants in ZNF300

This is a list of pathogenic ClinVar variants found in the ZNF300 region.

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

Position	Type	Phenotype	Significance	ClinVar
5-150895582-C-T		not specified	Uncertain significance (Dec 13, 2021)
5-150895617-C-T		not specified	Uncertain significance (Dec 31, 2023)
5-150895664-T-G		not specified	Uncertain significance (May 09, 2022)
5-150895692-G-A		not specified	Uncertain significance (Mar 25, 2022)
5-150895753-T-G		not specified	Uncertain significance (Dec 17, 2023)
5-150895812-C-T		not specified	Uncertain significance (Dec 30, 2023)
5-150895845-T-A		not specified	Uncertain significance (Dec 30, 2023)
5-150895872-T-A		not specified	Uncertain significance (Feb 14, 2023)
5-150895966-T-C		not specified	Uncertain significance (Sep 28, 2021)
5-150896079-C-T		not specified	Uncertain significance (Feb 01, 2023)
5-150896164-C-T		not specified	Uncertain significance (Dec 13, 2021)
5-150896165-G-A			Benign (Oct 19, 2017)
5-150896181-T-C		not specified	Uncertain significance (Jun 01, 2023)
5-150896292-T-C		not specified	Uncertain significance (Aug 08, 2022)
5-150896314-T-G		not specified	Uncertain significance (Mar 21, 2023)
5-150896340-C-T		not specified	Uncertain significance (Jan 10, 2023)
5-150896401-T-C		not specified	Uncertain significance (Nov 09, 2023)
5-150896410-C-T		not specified	Uncertain significance (Mar 24, 2023)
5-150896470-T-G		not specified	Uncertain significance (Jul 14, 2022)
5-150896479-G-T		not specified	Uncertain significance (Dec 20, 2023)
5-150896484-T-A		not specified	Uncertain significance (May 06, 2024)
5-150896527-C-T		not specified	Uncertain significance (Sep 14, 2022)
5-150896549-A-G			Benign (Oct 19, 2017)
5-150896590-C-T			Benign (Nov 09, 2017)
5-150896599-G-C		not specified	Likely benign (May 18, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
ZNF300	protein_coding	protein_coding	ENST00000446148	5	10592

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.0000112	0.989	125670	0	45	125715	0.000179

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.681	286	320	0.893	0.0000146	4100
Missense in Polyphen		114	131.73	0.86543		1639
Synonymous	0.0821	112	113	0.990	0.00000542	1115
Loss of Function	2.27	12	24.0	0.500	0.00000109	347

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000203	0.000203
Ashkenazi Jewish	0.00	0.00
East Asian	0.000381	0.000381
Finnish	0.00	0.00
European (Non-Finnish)	0.000185	0.000185
Middle Eastern	0.000381	0.000381
South Asian	0.000327	0.000327
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Has a transcriptional repressor activity. {ECO:0000269|PubMed:14746915}.
• Pathway: Gene expression (Transcription);Generic Transcription Pathway;RNA Polymerase II Transcription (Consensus)

Intolerance Scores

• loftool: 0.919
• rvis_EVS: -0.49
• rvis_percentile_EVS: 22.51

Haploinsufficiency Scores

• pHI: 0.259
• hipred: N
• hipred_score: 0.174
• ghis: 0.556

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: S
• gene_indispensability_pred: E
• gene_indispensability_score: 0.559

Gene Damage Prediction

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

Gene ontology

• Biological process: positive regulation of transcription by RNA polymerase II
• Cellular component: nucleus;nucleolus
• Molecular function: DNA-binding transcription factor activity, RNA polymerase II-specific;DNA-binding transcription activator activity, RNA polymerase II-specific;protein binding;sequence-specific DNA binding;metal ion binding