FOXJ3

forkhead box J3, the group of Forkhead boxes

Basic information

Region (hg38): 1:42176539-42335877

Links

ENSG00000198815 ∙ NCBI:22887 ∙ OMIM:616035 ∙ HGNC:29178 ∙ Uniprot:Q9UPW0 ∙ 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 FOXJ3 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the FOXJ3 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			38			38
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	38	0	0

Variants in FOXJ3

This is a list of pathogenic ClinVar variants found in the FOXJ3 region.

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

Position	Type	Phenotype	Significance	ClinVar
1-42179756-G-C		not specified	Uncertain significance (Jun 29, 2023)
1-42179780-G-C		not specified	Uncertain significance (Aug 12, 2021)
1-42179807-T-C		not specified	Uncertain significance (Aug 02, 2022)
1-42181929-T-C		not specified	Uncertain significance (Mar 01, 2024)
1-42181976-G-A		not specified	Uncertain significance (Jan 09, 2024)
1-42182002-C-A		not specified	Uncertain significance (May 31, 2023)
1-42182009-T-C		not specified	Uncertain significance (Apr 25, 2022)
1-42188751-T-C		not specified	Uncertain significance (Feb 12, 2024)
1-42188764-T-A		not specified	Uncertain significance (Aug 13, 2021)
1-42188781-T-C		not specified	Uncertain significance (Feb 16, 2023)
1-42188795-T-G		not specified	Uncertain significance (Jun 17, 2024)
1-42191314-G-A		not specified	Uncertain significance (Dec 15, 2023)
1-42191326-G-T		not specified	Uncertain significance (Dec 16, 2022)
1-42191349-T-G		not specified	Uncertain significance (Aug 01, 2022)
1-42191392-T-C		not specified	Uncertain significance (Apr 12, 2022)
1-42191406-C-A		not specified	Uncertain significance (Jan 23, 2023)
1-42191406-C-G		not specified	Uncertain significance (Oct 03, 2023)
1-42191467-C-G		not specified	Uncertain significance (Nov 01, 2022)
1-42191491-T-C		not specified	Uncertain significance (Dec 20, 2023)
1-42191494-G-A		not specified	Uncertain significance (May 06, 2022)
1-42191497-C-G		not specified	Uncertain significance (Dec 19, 2023)
1-42191537-G-A		not specified	Uncertain significance (Oct 05, 2023)
1-42191602-T-C		not specified	Uncertain significance (Mar 17, 2023)
1-42191663-G-C		not specified	Uncertain significance (Nov 30, 2022)
1-42194961-T-A		not specified	Uncertain significance (Mar 31, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
FOXJ3	protein_coding	protein_coding	ENST00000372572	12	159339

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.996	0.00402	125689	0	6	125695	0.0000239

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	1.31	271	339	0.799	0.0000171	4118
Missense in Polyphen		64	113.66	0.56308		1442
Synonymous	-1.02	134	120	1.12	0.00000617	1154
Loss of Function	4.76	4	33.9	0.118	0.00000178	365

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000123	0.000123
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.00	0.00
European (Non-Finnish)	0.0000364	0.0000352
Middle Eastern	0.00	0.00
South Asian	0.00	0.00
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Transcriptional activator of MEF2C involved in the regulation pf adult muscle fiber type identity and skeletal muscle regeneration. {ECO:0000250|UniProtKB:Q8BUR3}.

Recessive Scores

• pRec: 0.144

Intolerance Scores

• loftool: 0.102
• rvis_EVS: 0.29
• rvis_percentile_EVS: 71.5

Haploinsufficiency Scores

• pHI: 0.752
• hipred: Y
• hipred_score: 0.570
• ghis: 0.527

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.946

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Foxj3
• Phenotype: cellular phenotype; muscle phenotype; adipose tissue phenotype (the observable morphological and physiological characteristics of mammalian fat tissue that are manifested through development and lifespan); integument phenotype (the observable morphological and physiological characteristics of the skin and its associated structures, such as the hair, nails, sweat glands, sebaceous glands and other secretory glands that are manifested through development and lifespan); skeleton phenotype; vision/eye phenotype; mortality/aging (the observable characteristics related to the ability of a mammalian organism to live and age that are manifested throughout development and life span); behavior/neurological phenotype (the observable actions or reactions of mammalian organisms that are manifested through development and lifespan)

Gene ontology

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