ZBTB9

zinc finger and BTB domain containing 9, the group of Zinc fingers C2H2-type|BTB domain containing

Basic information

Region (hg38): 6:33453970-33457544

Links

ENSG00000213588 ∙ NCBI:221504 ∙ ∙ HGNC:28323 ∙ Uniprot:Q96C00 ∙ 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 ZBTB9 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the ZBTB9 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			22	2		24
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	22	2	0

Variants in ZBTB9

This is a list of pathogenic ClinVar variants found in the ZBTB9 region.

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

Position	Type	Phenotype	Significance	ClinVar
6-33455176-G-A		not specified	Uncertain significance (Aug 24, 2022)
6-33455207-A-C		not specified	Uncertain significance (Jun 09, 2022)
6-33455237-A-G		not specified	Uncertain significance (Jan 16, 2024)
6-33455333-T-G		not specified	Uncertain significance (Oct 19, 2024)
6-33455366-G-C		not specified	Uncertain significance (Oct 18, 2021)
6-33455438-A-T		not specified	Uncertain significance (Oct 25, 2023)
6-33455494-G-A		not specified	Uncertain significance (Jun 03, 2022)
6-33455516-G-A		not specified	Likely benign (Sep 11, 2024)
6-33455534-G-A		not specified	Uncertain significance (Oct 01, 2024)
6-33455549-C-T		not specified	Uncertain significance (Dec 11, 2024)
6-33455551-C-T		not specified	Uncertain significance (Dec 31, 2024)
6-33455594-C-T		not specified	Uncertain significance (Dec 13, 2024)
6-33455651-C-T		not specified	Uncertain significance (Mar 25, 2024)
6-33455677-G-C		not specified	Uncertain significance (Mar 06, 2025)
6-33455693-G-C		not specified	Uncertain significance (Oct 10, 2023)
6-33455719-C-G		not specified	Uncertain significance (Jun 17, 2024)
6-33455786-C-T		not specified	Uncertain significance (Mar 27, 2023)
6-33455789-C-T		not specified	Uncertain significance (Jan 07, 2025)
6-33455831-T-G		not specified	Uncertain significance (Apr 07, 2022)
6-33455834-C-T		not specified	Uncertain significance (Jan 17, 2025)
6-33455843-A-G		not specified	Uncertain significance (Aug 20, 2024)
6-33455903-C-T		not specified	Uncertain significance (Jan 17, 2025)
6-33455911-G-A		not specified	Uncertain significance (Jun 24, 2022)
6-33455924-C-G		not specified	Uncertain significance (Sep 22, 2023)
6-33455935-C-G		not specified	Uncertain significance (Jul 05, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
ZBTB9	protein_coding	protein_coding	ENST00000395064	1	2970

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.0725	0.916	125724	0	24	125748	0.0000954

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	1.17	224	279	0.803	0.0000160	2998
Missense in Polyphen		50	97.583	0.51238		1064
Synonymous	1.06	93	107	0.869	0.00000548	1065
Loss of Function	2.21	4	12.4	0.322	6.96e-7	150

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000293	0.0000293
Ashkenazi Jewish	0.00	0.00
East Asian	0.0000544	0.0000544
Finnish	0.00	0.00
European (Non-Finnish)	0.000151	0.000149
Middle Eastern	0.0000544	0.0000544
South Asian	0.0000990	0.0000980
Other	0.000330	0.000326

dbNSFP

Source: dbNSFP

• Function: FUNCTION: May be involved in transcriptional regulation.

Intolerance Scores

• loftool: 0.435
• rvis_EVS: 0.53
• rvis_percentile_EVS: 80.82

Haploinsufficiency Scores

• pHI: 0.177
• hipred: N
• hipred_score: 0.261
• ghis: 0.537

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: S
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.966

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Zbtb9

Gene ontology

• Cellular component: nucleus
• Molecular function: DNA binding;protein binding;metal ion binding