BHLHE23

basic helix-loop-helix family member e23, the group of Basic helix-loop-helix proteins

Basic information

Region (hg38): 20:63005927-63007035

Previous symbols: [ "BHLHB4" ]

Links

ENSG00000125533 ∙ NCBI:128408 ∙ OMIM:609331 ∙ HGNC:16093 ∙ Uniprot:Q8NDY6 ∙ 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 BHLHE23 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the BHLHE23 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			9			9
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	9	0	0

Variants in BHLHE23

This is a list of pathogenic ClinVar variants found in the BHLHE23 region.

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

Position	Type	Phenotype	Significance	ClinVar
20-63006131-G-A		not specified	Uncertain significance (Dec 22, 2024)
20-63006266-T-A		not specified	Uncertain significance (Feb 13, 2025)
20-63006372-C-A		not specified	Uncertain significance (Jun 16, 2023)
20-63006435-G-C		not specified	Uncertain significance (Aug 26, 2024)
20-63006479-C-A		not specified	Uncertain significance (Sep 09, 2024)
20-63006505-G-T		not specified	Uncertain significance (Apr 12, 2022)
20-63006567-C-T		not specified	Uncertain significance (Jun 22, 2023)
20-63006624-C-T		not specified	Uncertain significance (Mar 06, 2023)
20-63006668-G-A		not specified	Uncertain significance (Mar 19, 2024)
20-63006687-C-A		not specified	Uncertain significance (Jun 10, 2024)
20-63006765-G-C		not specified	Uncertain significance (Sep 11, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
BHLHE23	protein_coding	protein_coding	ENST00000370346	1	1057

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.196	0.659	0	0	0	0	0.00

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-0.129	86	82.7	1.04	0.00000379	1373
Missense in Polyphen		37	35.273	1.0489		423
Synonymous	-1.40	53	41.6	1.28	0.00000203	517
Loss of Function	0.966	1	2.72	0.368	1.16e-7	42

LoF frequencies by population

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

dbNSFP

Source: dbNSFP

• Function: FUNCTION: May function as transcriptional repressor. May modulate the expression of genes required for the differentiation and/or maintenance of pancreatic and neuronal cell types. May be important for rod bipolar cell maturation (By similarity). {ECO:0000250}.

Haploinsufficiency Scores

• pHI: 0.0997
• hipred: N
• hipred_score: 0.459

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.477

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Bhlhe23
• Phenotype: cellular phenotype; nervous system phenotype (the observable morphological and physiological characteristics of the extensive, intricate network of electochemical structures in the body that is comprised of the brain, spinal cord, nerves, ganglia and parts of the receptor organs that are manifested through development and lifespan); vision/eye phenotype

Gene ontology

• Biological process: regulation of transcription by RNA polymerase II;cell development
• Cellular component: nucleus
• Molecular function: DNA-binding transcription factor activity, RNA polymerase II-specific;DNA binding;protein dimerization activity