ZNF248

zinc finger protein 248, the group of Zinc fingers C2H2-type

Basic information

Region (hg38): 10:37776526-37858106

Links

ENSG00000198105 ∙ NCBI:57209 ∙ ∙ HGNC:13041 ∙ Uniprot:Q8NDW4 ∙ 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 ZNF248 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the ZNF248 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			24	1		25
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	24	1	0

Variants in ZNF248

This is a list of pathogenic ClinVar variants found in the ZNF248 region.

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

Position	Type	Phenotype	Significance	ClinVar
10-37831674-A-G		not specified	Uncertain significance (Sep 29, 2023)
10-37831702-A-T		not specified	Uncertain significance (Dec 17, 2023)
10-37831703-T-G		not specified	Uncertain significance (May 25, 2022)
10-37831910-T-C		not specified	Uncertain significance (Feb 15, 2023)
10-37832223-T-G		not specified	Uncertain significance (Jan 10, 2023)
10-37832232-T-C		not specified	Uncertain significance (Sep 27, 2022)
10-37832346-A-G		not specified	Uncertain significance (Aug 02, 2022)
10-37832408-T-G		not specified	Uncertain significance (Sep 08, 2024)
10-37832435-C-T		not specified	Uncertain significance (May 16, 2024)
10-37832457-T-G		not specified	Uncertain significance (Apr 05, 2023)
10-37832471-T-C		not specified	Uncertain significance (Jun 07, 2024)
10-37832534-A-C		not specified	Uncertain significance (Jan 02, 2024)
10-37832594-C-T		not specified	Uncertain significance (Oct 04, 2022)
10-37832596-T-G		not specified	Uncertain significance (Nov 18, 2023)
10-37832633-A-G		not specified	Uncertain significance (Nov 07, 2024)
10-37832637-T-C		not specified	Uncertain significance (Jul 20, 2021)
10-37832670-A-C		not specified	Uncertain significance (Jan 16, 2024)
10-37832682-C-G		not specified	Uncertain significance (Dec 03, 2024)
10-37832736-G-T		not specified	Uncertain significance (May 09, 2022)
10-37832760-T-C		not specified	Uncertain significance (Apr 18, 2024)
10-37832774-T-C		not specified	Uncertain significance (Dec 22, 2023)
10-37832780-T-C		not specified	Uncertain significance (Dec 16, 2023)
10-37832858-T-A		not specified	Uncertain significance (Sep 20, 2023)
10-37832945-T-C		not specified	Uncertain significance (Oct 16, 2024)
10-37833018-C-A		not specified	Uncertain significance (Sep 17, 2021)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
ZNF248	protein_coding	protein_coding	ENST00000395867	4	55284

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.326	0.674	125716	0	32	125748	0.000127

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.483	268	291	0.920	0.0000138	3876
Missense in Polyphen		56	98.225	0.57012		1328
Synonymous	0.677	95	104	0.915	0.00000521	983
Loss of Function	3.32	5	21.7	0.231	0.00000101	337

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000235	0.000235
Ashkenazi Jewish	0.00	0.00
East Asian	0.0000544	0.0000544
Finnish	0.000232	0.000231
European (Non-Finnish)	0.000159	0.000158
Middle Eastern	0.0000544	0.0000544
South Asian	0.0000327	0.0000327
Other	0.00	0.00

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: 0.0947

Intolerance Scores

• loftool: 0.564
• rvis_EVS: -0.31
• rvis_percentile_EVS: 32.06

Haploinsufficiency Scores

• pHI: 0.182
• hipred: N
• hipred_score: 0.383
• ghis: 0.575

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.0215

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Zfp248

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