BTBD2

BTB domain containing 2, the group of BTB domain containing

Basic information

Region (hg38): 19:1985438-2034881

Links

ENSG00000133243 ∙ NCBI:55643 ∙ OMIM:608531 ∙ HGNC:15504 ∙ Uniprot:Q9BX70 ∙ 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 BTBD2 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the BTBD2 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				5		5
missense			33	1		34
nonsense						0
start loss						0
frameshift						0
inframe indel				1		1
splice donor/acceptor (+/-2bp)						0
splice region				1		1
non coding						0
Total	0	0	33	7	0

Variants in BTBD2

This is a list of pathogenic ClinVar variants found in the BTBD2 region.

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

Position	Type	Phenotype	Significance	ClinVar
19-1986557-G-A		not specified	Likely benign (Nov 21, 2023)
19-1986646-G-A		not specified	Uncertain significance (May 09, 2023)
19-1986859-C-T		not specified	Uncertain significance (Nov 09, 2021)
19-1986871-C-T		not specified	Uncertain significance (Jan 16, 2024)
19-1986895-C-T		not specified	Uncertain significance (Oct 24, 2023)
19-1986898-G-A		not specified	Uncertain significance (Dec 15, 2023)
19-1986909-G-A		not specified	Uncertain significance (May 01, 2022)
19-1986919-C-T		not specified	Uncertain significance (Dec 19, 2023)
19-1986933-G-A		not specified	Uncertain significance (Mar 25, 2024)
19-1987228-C-T		not specified	Uncertain significance (Apr 22, 2024)
19-1987593-G-C		not specified	Uncertain significance (Feb 13, 2024)
19-1987596-C-T		not specified	Uncertain significance (Jan 29, 2024)
19-1987680-G-A		not specified	Uncertain significance (Dec 01, 2022)
19-1990069-T-G		not specified	Uncertain significance (Apr 17, 2024)
19-1990129-C-T		not specified	Uncertain significance (Mar 14, 2023)
19-1990151-G-A		not specified	Uncertain significance (Nov 08, 2022)
19-1990159-C-T		not specified	Uncertain significance (Feb 28, 2024)
19-1990175-C-T		not specified	Uncertain significance (Oct 12, 2021)
19-1990754-G-A			Likely benign (Mar 01, 2023)
19-1990769-G-C		not specified	Uncertain significance (Oct 25, 2023)
19-1990770-T-C		not specified	Uncertain significance (Jan 09, 2024)
19-1993034-T-C		not specified	Uncertain significance (May 05, 2022)
19-1993102-G-A		not specified	Uncertain significance (Sep 16, 2021)
19-1993126-G-T		not specified	Uncertain significance (Sep 23, 2023)
19-1997364-A-T			Likely benign (Mar 01, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
BTBD2	protein_coding	protein_coding	ENST00000255608	9	49434

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.875	0.125	125547	0	6	125553	0.0000239

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	1.79	222	311	0.715	0.0000216	3360
Missense in Polyphen		75	135.25	0.55452		1200
Synonymous	-2.77	186	144	1.29	0.0000116	1108
Loss of Function	3.52	3	20.0	0.150	0.00000111	208

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000585	0.0000585
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.00	0.00
European (Non-Finnish)	0.0000374	0.0000353
Middle Eastern	0.00	0.00
South Asian	0.00	0.00
Other	0.00	0.00

dbNSFP

Source: dbNSFP

Recessive Scores

• pRec: 0.112

Intolerance Scores

• loftool: 0.160
• rvis_EVS: -0.62
• rvis_percentile_EVS: 17.31

Haploinsufficiency Scores

• pHI: 0.160
• hipred: Y
• hipred_score: 0.783
• ghis: 0.612

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.731

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Btbd2

Gene ontology

• Biological process: neurogenesis
• Cellular component: P-body;cytosol
• Molecular function: protein binding