ARSJ

arylsulfatase family member J, the group of Sulfatases

Basic information

Region (hg38): 4:113900284-113979727

Links

ENSG00000180801 ∙ NCBI:79642 ∙ OMIM:610010 ∙ HGNC:26286 ∙ Uniprot:Q5FYB0 ∙ 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 ARSJ gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the ARSJ 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			32	1		33
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	32	1	0

Variants in ARSJ

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

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

Position	Type	Phenotype	Significance	ClinVar
4-113902278-C-A		not specified	Uncertain significance (Oct 26, 2022)
4-113902293-G-A		not specified	Uncertain significance (Aug 21, 2023)
4-113902302-G-C		not specified	Uncertain significance (Oct 20, 2021)
4-113902315-C-G		not specified	Uncertain significance (May 27, 2022)
4-113902429-C-T		not specified	Uncertain significance (Aug 26, 2024)
4-113902467-G-T		not specified	Uncertain significance (Nov 13, 2023)
4-113902542-C-T		not specified	Uncertain significance (Jul 20, 2021)
4-113902543-T-A		not specified	Uncertain significance (Jan 17, 2024)
4-113902609-T-C		not specified	Uncertain significance (Dec 07, 2021)
4-113902716-T-C		not specified	Uncertain significance (Jan 29, 2024)
4-113902765-C-G		not specified	Uncertain significance (Nov 27, 2023)
4-113902830-C-T			Likely benign (Aug 11, 2018)
4-113902855-T-C		not specified	Uncertain significance (Sep 27, 2021)
4-113902920-A-G		not specified	Uncertain significance (Nov 29, 2021)
4-113903070-C-T		not specified	Uncertain significance (Feb 02, 2024)
4-113903076-G-A		not specified	Uncertain significance (Aug 28, 2024)
4-113903094-T-C		not specified	Uncertain significance (May 26, 2022)
4-113903100-G-A		not specified	Uncertain significance (Apr 20, 2023)
4-113903191-C-A		not specified	Uncertain significance (Nov 07, 2022)
4-113903221-T-C		not specified	Uncertain significance (Oct 20, 2021)
4-113903226-C-A		not specified	Uncertain significance (Oct 25, 2023)
4-113903226-C-T		not specified	Uncertain significance (Jul 09, 2024)
4-113903236-C-G		not specified	Uncertain significance (Oct 26, 2022)
4-113903236-C-T		not specified	Uncertain significance (Dec 27, 2023)
4-113903289-T-C		not specified	Uncertain significance (Jul 09, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
ARSJ	protein_coding	protein_coding	ENST00000315366	2	79444

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
1.13e-7	0.799	124722	1	71	124794	0.000289

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	1.69	239	325	0.736	0.0000165	3894
Missense in Polyphen		90	149.81	0.60076		1768
Synonymous	-0.534	134	126	1.06	0.00000698	1179
Loss of Function	1.43	14	21.1	0.663	0.00000108	259

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.00142	0.00142
Ashkenazi Jewish	0.0000993	0.0000993
East Asian	0.000223	0.000223
Finnish	0.000139	0.000139
European (Non-Finnish)	0.000274	0.000274
Middle Eastern	0.000223	0.000223
South Asian	0.000229	0.000196
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Pathway: Metabolism of lipids;Post-translational protein modification;Metabolism of proteins;The activation of arylsulfatases;Gamma carboxylation, hypusine formation and arylsulfatase activation;Metabolism;Glycosphingolipid metabolism;Sphingolipid metabolism (Consensus)

Recessive Scores

• pRec: 0.110

Intolerance Scores

• loftool: 0.250
• rvis_EVS: -0.09
• rvis_percentile_EVS: 46.92

Haploinsufficiency Scores

• pHI: 0.0697
• hipred: N
• hipred_score: 0.391
• ghis: 0.510

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.357

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Arsj

Gene ontology

• Cellular component: extracellular region;endoplasmic reticulum lumen
• Molecular function: arylsulfatase activity;metal ion binding