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ARSG

gene
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Also known as KIAA1001

Summary

ARSG (arylsulfatase G, HGNC:24102) is a protein-coding gene on chromosome 17q24.2, encoding Arylsulfatase G (Q96EG1). Displays arylsulfatase activity at acidic pH towards artificial substrates, such as p-nitrocatechol sulfate and also, but with a lower activity towards p-nitrophenyl sulfate and 4-methylumbelliferyl sulfate.

The protein encoded by this gene belongs to the sulfatase enzyme family. Sulfatases hydrolyze sulfate esters from sulfated steroids, carbohydrates, proteoglycans, and glycolipids. They are involved in hormone biosynthesis, modulation of cell signaling, and degradation of macromolecules. This protein displays arylsulfatase activity at acidic pH, as is typical of lysosomal sulfatases, and has been shown to localize in the lysosomes. Alternatively spliced transcript variants have been found for this gene.

Source: NCBI Gene 22901 — RefSeq curated summary.

At a glance

  • Gene–disease (curated): Usher syndrome, type 4 (Strong, GenCC) — +1 more curated relationship
  • GWAS associations: 7
  • Clinical variants (ClinVar): 655 total — 26 pathogenic, 16 likely-pathogenic (top 5% of genes corpus-wide)
  • GTEx eGene: eQTL in 28 tissues, sQTL in 9 (q < 0.05)
  • Phenotypes (HPO): 20
  • Constraint (gnomAD): pLI 0.00 (LoF-tolerant), LOEUF 1.00 (unconstrained)
  • MANE Select transcript: NM_001267727

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:24102
Approved symbolARSG
Namearylsulfatase G
Location17q24.2
Locus typegene with protein product
StatusApproved
AliasesKIAA1001
Ensembl geneENSG00000141337
Ensembl biotypeprotein_coding
OMIM610008
Entrez22901

Gene structure

Transcript identifiers

Ensembl transcripts: 15 — 10 protein_coding, 4 protein_coding_CDS_not_defined, 1 retained_intron

MANE Select: ENST00000621439

Transcript support level (Ensembl TSL; 1 = fully mRNA-supported): TSL 1: 2, TSL 2: 1, TSL 3: 1, TSL 5: 4

ENST00000621439, ENST00000448504, ENST00000452479, ENST00000578554, ENST00000578726, ENST00000581032, ENST00000582154, ENST00000590690, ENST00000996773, ENST00001024094, ENST00001024096, ENST00001078272, ENST00001078273, ENST00001125650, ENST00001143520

RefSeq mRNA: 13 — MANE Select: NM_001267727 NM_001267727, NM_001352899, NM_001352900, NM_001352901, NM_001352902, NM_001352903, NM_001352904, NM_001352905, NM_001352906, NM_001352907, NM_001352909, NM_001352910, NM_014960

CCDS: CCDS11676

Canonical transcript exons

ENST00000621439 — 12 exons

ExonStartEnd
ENSE000015985316830694368307711
ENSE000034898986840136068401450
ENSE000035370626835666768356804
ENSE000035602046836854868368744
ENSE000035757666834712568347172
ENSE000036065706839507368395193
ENSE000036140836835157568351686
ENSE000036165836838506468385172
ENSE000036555756837044468370524
ENSE000036654306834360468343791
ENSE000037172626842018968420814
ENSE000037396406829149568291568

Expression profiles

Bgee: expression breadth ubiquitous, 135 present calls, max score 88.54.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 9.1408 / max 643.6026, expressed in 1380 samples.

Highest expression (Bgee): blood, stromal cell of endometrium, monocyte, leukocyte, granulocyte.

Genetic regulation across tissues (GTEx eQTL / sQTL)

ARSG is an eGene in GTEx v10 — its expression is genetically regulated (eQTL) in 28 tissues and its splicing (sQTL) in 9 (q < 0.05). Strongest associations first; slope = normalized effect of the lead variant’s alternative allele.

showing 20 of 37 significant tissue × QTL associations:

TissueQTLq-valueSlopeLead variant
Artery Tibialeqtl1.4e-52-0.5417:68259066:C:T
Artery Aortaeqtl9.7e-25-0.4617:68257730:A:C
Pancreaseqtl1.6e-24-0.5617:68259280:A:G
Esophagus Musculariseqtl9.4e-20-0.4217:68257730:A:C
Cells Cultured fibroblastseqtl5.7e-18-0.2217:68271550:A:T
Brain Cerebellar Hemispheresqtl3.7e-17-0.9517:68368212:T:C
Brain Nucleus accumbens basal gangliasqtl9.3e-14-0.8317:68368212:T:C
Nerve Tibialeqtl2.1e-13-0.3417:68443355:C:T
Brain Cerebellumsqtl5.4e-12-0.8617:68368212:T:C
Esophagus Gastroesophageal Junctioneqtl3.3e-11-0.3817:68259066:C:T
Colon Sigmoideqtl7.8e-11-0.3617:68266615:A:G
Artery Coronaryeqtl2.7e-09-0.4617:68271550:A:T
Adipose Subcutaneouseqtl8.6e-09-0.2517:68259066:C:T
Whole Bloodsqtl4.4e-07+0.8317:68394077:T:C
Thyroideqtl1.5e-04+0.1717:68260815:G:T
Brain Cortexsqtl1.5e-04+0.6517:68368663:T:C
Skin Not Sun Exposed Suprapubiceqtl2.6e-03+0.1817:68290996:A:C
Uteruseqtl2.8e-03-0.3717:68262813:T:G
Pituitaryeqtl4.4e-03-0.3617:68442201:T:C
Whole Bloodeqtl6.9e-03-0.3417:68360952:G:A

FANTOM5 promoters

showing 10 of 14 alternative TSS:

Promoter IDTPM avgSamples expressed
1624043.5953985
1624051.6757563
1624061.0857245
1624031.0341450
1623960.6536411
1624020.2831151
1624070.206650
1624130.143825
1624250.135258
1624140.125212

Top tissues by expression

showing 100 of 138 tissues by Bgee expression score (0-100, higher = more expressed):

TissueAnatomy IDExpression scoreQuality
bloodUBERON:000017888.54gold quality
stromal cell of endometriumCL:000225587.87gold quality
monocyteCL:000057685.36gold quality
leukocyteCL:000073885.25gold quality
granulocyteCL:000009483.95gold quality
bone marrow cellCL:000209282.17gold quality
thymusUBERON:000237081.59silver quality
primordial germ cell in gonadCL:0000670 ∩ UBERON:000099180.78gold quality
bone marrowUBERON:000237180.59gold quality
adrenal tissueUBERON:001830379.15gold quality
cerebellar cortexUBERON:000212978.66gold quality
cerebellumUBERON:000203778.62gold quality
cerebellar hemisphereUBERON:000224578.61gold quality
right hemisphere of cerebellumUBERON:001489078.58gold quality
endometriumUBERON:000129578.18gold quality
right adrenal glandUBERON:000123377.78gold quality
pituitary glandUBERON:000000777.57gold quality
adrenal glandUBERON:000236977.42gold quality
right adrenal gland cortexUBERON:003582777.36gold quality
left adrenal glandUBERON:000123477.19gold quality
male germ line stem cell (sensu Vertebrata) in testisCL:0000089 ∩ UBERON:000047376.83gold quality
sural nerveUBERON:001548876.80gold quality
left adrenal gland cortexUBERON:003582576.68gold quality
tonsilUBERON:000237276.42gold quality
apex of heartUBERON:000209876.37gold quality
cerebellar vermisUBERON:000472076.37gold quality
adenohypophysisUBERON:000219676.36gold quality
skeletal muscle tissueUBERON:000113476.18gold quality
gastrocnemiusUBERON:000138876.10gold quality
lymph nodeUBERON:000002975.86gold quality
ventricular zoneUBERON:000305375.84gold quality
right uterine tubeUBERON:000130275.71gold quality
muscle of legUBERON:000138375.67gold quality
muscle tissueUBERON:000238575.56gold quality
fallopian tubeUBERON:000388975.17gold quality
left ovaryUBERON:000211975.03gold quality
spleenUBERON:000210675.00gold quality
ovaryUBERON:000099274.79gold quality
smooth muscle tissueUBERON:000113574.76gold quality
islet of LangerhansUBERON:000000674.72gold quality
thyroid glandUBERON:000204674.65gold quality
prefrontal cortexUBERON:000045174.46gold quality
skin of legUBERON:000151174.45gold quality
calcaneal tendonUBERON:000370174.39gold quality
zone of skinUBERON:000001474.22gold quality
heart left ventricleUBERON:000208474.10gold quality
esophagus mucosaUBERON:000246974.05gold quality
right atrium auricular regionUBERON:000663174.00gold quality
right ovaryUBERON:000211873.97gold quality
left lobe of thyroid glandUBERON:000112073.91gold quality
heartUBERON:000094873.79gold quality
skin of abdomenUBERON:000141673.78gold quality
mucosa of stomachUBERON:000119973.74gold quality
thoracic aortaUBERON:000151573.49gold quality
ascending aortaUBERON:000149673.45gold quality
frontal cortexUBERON:000187073.45gold quality
placentaUBERON:000198773.30gold quality
descending thoracic aortaUBERON:000234573.28gold quality
thoracic mammary glandUBERON:000520073.22gold quality
superior frontal gyrusUBERON:000266173.15gold quality
saliva-secreting glandUBERON:000104473.12gold quality
minor salivary glandUBERON:000183073.06gold quality
vermiform appendixUBERON:000115473.02gold quality
right lobe of thyroid glandUBERON:000111973.01gold quality
multicellular organismUBERON:000046873.00gold quality
right coronary arteryUBERON:000162572.95gold quality
subcutaneous adipose tissueUBERON:000219072.74gold quality
brainUBERON:000095572.64gold quality
left coronary arteryUBERON:000162672.63gold quality
putamenUBERON:000187472.46gold quality
tibial nerveUBERON:000132372.43gold quality
tibial arteryUBERON:000761072.36gold quality
popliteal arteryUBERON:000225072.35gold quality
body of uterusUBERON:000985372.22gold quality
cortex of kidneyUBERON:000122572.14gold quality
nucleus accumbensUBERON:000188272.10gold quality
right frontal lobeUBERON:000281072.00gold quality
myometriumUBERON:000129671.93gold quality
olfactory segment of nasal mucosaUBERON:000538671.83gold quality
esophagusUBERON:000104371.78gold quality
uterine cervixUBERON:000000271.72gold quality
caudate nucleusUBERON:000187371.48gold quality
colonic epitheliumUBERON:000039771.46silver quality
cerebral cortexUBERON:000095671.39gold quality
adipose tissueUBERON:000101371.30gold quality
dorsolateral prefrontal cortexUBERON:000983471.25gold quality
hindlimb stylopod muscleUBERON:000425271.19gold quality
Brodmann (1909) area 9UBERON:001354070.74gold quality
upper lobe of left lungUBERON:000895270.68gold quality
adult mammalian kidneyUBERON:000008270.63gold quality
gall bladderUBERON:000211070.59gold quality
body of stomachUBERON:000116170.55gold quality
primary visual cortexUBERON:000243670.49gold quality
kidneyUBERON:000211370.40gold quality
ectocervixUBERON:001224970.40gold quality
substantia nigraUBERON:000203870.13gold quality
endocervixUBERON:000045870.01gold quality
stomachUBERON:000094570.00gold quality
anterior cingulate cortexUBERON:000983569.98gold quality
right lungUBERON:000216769.70gold quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 1.

ExperimentMarker?Max mean expression
E-ANND-3yes5.18

HPA expression

RNA tissue specificity: Tissue enhanced

showing 60 of 76 HPA tissues / cells by nTPM:

Tissue / cellAxisnTPMProtein (IHC)
Epididymistissue28.6low
Caudate putamentissue27.5
Choroid plexustissue24.0
Locus coeruleustissue11.3
Frontal cortextissue11.0
Postcentral gyrustissue9.5
Nucleus accumbenstissue8.8
Corpus callosumtissue7.3
Retinatissue7.2
Thyroid glandtissue7.0low
Fallopian tubetissue6.2not detected
Hippocampustissue6.1low
Medulla oblongatatissue6.0
Basal gangliatissue5.9low
Amygdalatissue5.8
Spinal cordtissue5.8
Ventral forebraintissue5.7
Hippocampal formationtissue5.5
Hypothalamustissue5.4
Substantia nigratissue5.4
Septumtissue5.4
Ovarytissue5.3not detected
Superior colliculitissue5.3
Seminal vesicletissue5.2low
Periaqueductal graytissue5.2
Pituitary glandtissue5.1
Breasttissue5.1not detected
Putamentissue5.1
Cerebral cortextissue4.8low
Midbraintissue4.8
Insular cortextissue4.8
Ponstissue4.7
Thalamustissue4.7
Retrosplenial cortextissue4.7
Heart muscletissue4.6low
Spleentissue4.6not detected
Olfactory bulbtissue4.6
Entorhinal cortextissue4.5
Prefrontal cortextissue4.4
Retrosplenial and cingulate cortextissue4.3
Skin 1tissue4.2not detected
Motor cortextissue4.2
Temporal cortextissue4.2
Esophagustissue4.1not detected
Occipital cortextissue4.1
Somatosensory cortextissue4.0
Lymph nodetissue3.7not detected
Endometrium 1tissue3.6not detected
Tonsiltissue3.4not detected
Cervixtissue3.3not detected
Bone marrowtissue3.2not detected
Adrenal glandtissue3.0low
Salivary glandtissue2.9low
Tonguetissue2.8
Appendixtissue2.7not detected
Skeletal muscletissue2.4not detected
Placentatissue2.4not detected
Cerebellumtissue2.4low
Thymustissue2.3
Stomach 1tissue2.2low

Brain sub-regions (HPA Brain Atlas): detected in 189; highest nTPM — Vermis (19.1), Flocculonodular lobe (18.8), Cerebellar cortex (18.4), Inferior colliculus (13.1), Pontine raphe nucleus (13.1).

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

Targeting ARSG by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific).

18 miRNAs:

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-3646100.0073.565283
HSA-MIR-5193100.0067.261744
HSA-MIR-366299.9973.825684
HSA-MIR-806399.9169.763146
HSA-MIR-449699.8868.892236
HSA-MIR-477999.8666.501583
HSA-MIR-607999.8468.541170
HSA-MIR-6505-5P99.7369.251595
HSA-MIR-4708-3P99.5167.99870
HSA-MIR-65799.4866.02848
HSA-MIR-519D-5P99.4169.302057
HSA-MIR-569599.4167.481047
HSA-MIR-6830-5P99.0168.731884
HSA-MIR-5006-5P98.7966.921246
HSA-MIR-4755-3P98.7765.591915
HSA-MIR-3145-5P98.5767.83900
HSA-MIR-532-5P98.4367.53760
HSA-MIR-428897.1167.231636

Functional genomics

gnomAD constraint: pLI 2.57e-09, LOEUF 0.996, missense Z 1.23 — population loss-of-function intolerance (pLI ≥ 0.9 = LoF-intolerant; lower LOEUF = more constrained). gnomAD

Regional missense constraint (gnomAD RMC): no regional variation along ENST00000621439 — one region, missense o/e 0.93.

Literature-anchored findings (GeneRIF, showing 11)

  • molecular cloning and biochemical characterization of Arylsulfatase G [ARSG] (PMID:12461688)
  • Arylsulfatase G is a novel lysosomal sulfatase and its expression is tissue-specific with highest expression in liver, kidney, and pancreas (PMID:18283100)
  • Consistent genetic factors for ATP2B1, CSK, ARSG and CSMD1 were present, which have been shown to be associated with high blood pressure and hypertension in two Korean cohorts. (PMID:19960030)
  • Genome-wide significance with musician’s dystonia was observed for an intronic variant in the arylsulfatase G (ARSG) gene (rs11655081; P = 3.95 x 10(-9) ; odds ratio [OR], 4.33; 95% confidence interval [CI], 2.66-7.05). (PMID:24375517)
  • ARSG is differentially expressed, processed, and transported in tissues involving a membrane-associated pre-lysosomal precursor. (PMID:25135642)
  • This study provide further support for a role of ARSG variants in task-specific dystonia, especially writer’s cramp. (PMID:25825126)
  • We identified a homozygous founder missense variant, c.133G>T (p.D45Y) in arylsulfatase G (ARSG). All patients shared a distinctive retinal phenotype with ring-shaped atrophy along the arcades engirdling the fovea, resulting in ring scotoma. (PMID:29300381)
  • No association of rs11655081 ARSG with blepharospasm was found in a Greek cohort. (PMID:30656493)
  • New clinical and molecular evidence linking mutations in ARSG to Usher syndrome type IV. (PMID:33300174)
  • Multimodal imaging and genetic findings in a case of ARSG-related atypical Usher syndrome. (PMID:33629623)
  • Expanding the clinical phenotype in patients with disease causing variants associated with atypical Usher syndrome. (PMID:34223797)

Cross-species orthologs

9 orthologs

OrganismSymbolGene ID
danio_rerioarsgENSDARG00000101715
ENSDARG00000103261
mus_musculusArsgENSMUSG00000020604
rattus_norvegicusArsgENSRNOG00000003931
drosophila_melanogasterCG18278FBGN0033836
drosophila_melanogasterCG7408FBGN0036765
drosophila_melanogasterCG7402FBGN0036768
drosophila_melanogasterCG32191FBGN0052191
drosophila_melanogasterCG30059FBGN0260475

Paralogs (16): ARSD (ENSG00000006756), IDS (ENSG00000010404), ARSF (ENSG00000062096), ARSA (ENSG00000100299), STS (ENSG00000101846), ARSB (ENSG00000113273), GNS (ENSG00000135677), SULF1 (ENSG00000137573), GALNS (ENSG00000141012), ARSL (ENSG00000157399), ARSK (ENSG00000164291), ARSJ (ENSG00000180801), SGSH (ENSG00000181523), ARSI (ENSG00000183876), SULF2 (ENSG00000196562), ARSH (ENSG00000205667)

Mouse-model phenotypes

Observed phenotypes of the mouse ortholog (MGI:1921258) from MGI (Alliance of Genome Resources) — knockout/mutant phenotypes, ranked by annotation count. 24 distinct phenotype terms.

Mouse phenotype (MP)Records
astrocytosis2
microgliosis2
abnormal microglial cell morphology1
abnormal hepatocyte morphology1
abnormal Purkinje cell morphology1
decreased Purkinje cell number1
decreased exploration in new environment1
abnormal spatial learning1
abnormal learning/memory/conditioning1
abnormal kidney morphology1
abnormal macrophage morphology1
abnormal neuron morphology1
impaired passive avoidance behavior1
abnormal kidney epithelium morphology1
lysosomal protein accumulation1
abnormal perivascular macrophage morphology1
retina photoreceptor degeneration1
thin retina outer nuclear layer1
short photoreceptor outer segment1
abnormal hippocampus neuron morphology1
abnormal thalamus neuron morphology1
abnormal glycosaminoglycan level1
decreased total retina thickness1
abnormal liver sinusoidal endothelial cell morphology1

Additional cross-species homologs

Sequence homologs in species beyond Ensembl Compara’s model organisms, by Diamond local protein alignment (% sequence identity; best hit per species). Lower-identity rows are more distant homologs. The matched accessions’ gene symbols aren’t in biobtree yet, so each row shows the UniProt accession.

OrganismUniProtIdentityMethod
Canis lupus familiarisQ32KH795.6%Diamond
Sus scrofaQ8WNQ789.8%Diamond
Bos taurusQ08DD187.8%Diamond
Hemicentrotus pulcherrimusP1400069.0%Diamond
Strongylocentrotus purpuratusP5047368.6%Diamond
Formosa agariphila KMM 3901T2KM2639.4%Diamond
Bacteroides thetaiotaomicron VPI-5482Q89YS539.3%Diamond

Genomic neighbors (locus context)

Genes flanking this one on the chromosome (NCBI/Entrez gene neighborhood). Positional context only — some neighbors share regulatory elements (bidirectional promoters, antisense/overlapping transcripts), but chromosomal adjacency is not itself a functional relationship (see Interactions for that).

SymbolTypeEntrez
FAM20Aprotein-coding54757
WIPI1protein-coding55062
PRKAR1Aprotein-coding5573
MIR635ncRNA693220
AMZ2protein-coding51321
SLC16A6protein-coding9120
LINC01482ncRNA101928104

Protein

Protein identifiers

Arylsulfatase G — Q96EG1 (reviewed: Q96EG1)

Alternative names: N-sulfoglucosamine-3-sulfatase

All UniProt accessions (2): Q96EG1, J9JIG6

UniProt curated annotations — full annotation on UniProt →

Function. Displays arylsulfatase activity at acidic pH towards artificial substrates, such as p-nitrocatechol sulfate and also, but with a lower activity towards p-nitrophenyl sulfate and 4-methylumbelliferyl sulfate. Catalyzes the hydrolysis of the 3-sulfate groups of the N-sulfo-D-glucosamine 3-O-sulfate units of heparin.

Subcellular location. Lysosome.

Tissue specificity. Widely expressed, with very low expression in brain, lung, heart and skeletal muscle.

Post-translational modifications. N-glycosylated. N-glycosylated with both high mannose and complex type sugars. The conversion to 3-oxoalanine (also known as C-formylglycine, FGly), of a serine or cysteine residue in prokaryotes and of a cysteine residue in eukaryotes, is critical for catalytic activity. The 63-kDa precursor undergoes proteolytic processing in two steps, yielding two fragments in the first step (apparent molecular masses of 44 and 18 kDa). In the second step, the 44-kDa fragment is processed further to the 34- and 10-kDa chains. The 10-kDa chain is a cleavage product of the 44-kDa fragment but linked to the 18-kDa chain through a disulfide bridge.

Disease relevance. Usher syndrome 4 (USH4) [MIM:618144] A form of Usher syndrome, a genetically heterogeneous condition characterized by the association of retinitis pigmentosa with sensorineural deafness. Age at onset and differences in auditory and vestibular function distinguish different types of Usher syndrome. USH4 is characterized by late onset of retinitis pigmentosa and usually late-onset of progressive sensorineural hearing loss without vestibular involvement. USH4 inheritance is autosomal recessive. The disease is caused by variants affecting the gene represented in this entry.

Activity regulation. Inhibited by phosphate. The phosphate forms a covalent bond with the active site 3-oxoalanine.

Cofactor. Binds 1 Ca(2+) ion per subunit.

Similarity. Belongs to the sulfatase family.

RefSeq proteins (13): NP_001254656, NP_001339828, NP_001339829, NP_001339830, NP_001339831, NP_001339832, NP_001339833, NP_001339834, NP_001339835, NP_001339836, NP_001339838, NP_001339839, NP_055775 (=MANE)

Domains & families (InterPro)

IDNameType
IPR000917Sulfatase_domDomain
IPR017850Alkaline_phosphatase_core_sfHomologous_superfamily
IPR024607Sulfatase_CSConserved_site
IPR050738SulfataseFamily

Pfam: PF00884, PF14707

Catalyzed reactions (Rhea)

  • an aryl sulfate + H2O = a phenol + sulfate + H(+) (RHEA:17261)

UniProt features (31 total): sequence variant 10, binding site 8, glycosylation site 4, active site 2, mutagenesis site 2, sequence conflict 2, signal peptide 1, chain 1, modified residue 1

Structure

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q96EG1-F191.900.86

Human Protein Atlas

Protein class: Enzymes, ENZYME proteins, Hydrolases, Predicted intracellular proteins, Disease related genes, Potential drug targets, Human disease related genes, Eye disease

Protein evidence: Evidence at protein level

Antibody reliability (HPA): IH enhanced

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Catalytic / active sites (2)

PositionRole
84nucleophile
139

Ligand- & substrate-binding residues (8)

PositionRole
302Ca(2+)
303Ca(2+)
44Ca(2+)
45Ca(2+)
84Ca(2+)
137substrate
162substrate
251substrate

Post-translational modifications (1)

TypePositions
3-oxoalanine (cys)84

Glycosylation sites (4)

TypePositions
N-linked (glcnac…) asparagine117, 215, 356, 497

Mutagenesis-validated functional residues (2)

PositionPhenotype
84no sulfatase activity.
501decrease of sulfatase activity.

Function

Pathways and Gene Ontology

Reactome pathways

2 curated (TAS) of 9; 0 disease pathways. Curated-first; evidence = TAS (manually curated) vs IEA (electronic inference).

9 pathways:

IDPathwayEvidence
R-HSA-9840310Glycosphingolipid catabolismcurated
R-HSA-1663150The activation of arylsulfatasescurated
R-HSA-163841Gamma carboxylation, hypusinylation, hydroxylation, and arylsulfatase activation—
R-HSA-1660662Glycosphingolipid metabolism—
R-HSA-1430728Metabolism—
R-HSA-556833Metabolism of lipids—
R-HSA-392499Metabolism of proteins—
R-HSA-597592Post-translational protein modification—
R-HSA-428157Sphingolipid metabolism—

MSigDB gene sets: 133 (showing top): GSE18804_SPLEEN_MACROPHAGE_VS_COLON_TUMORAL_MACROPHAGE_UP, GOBP_VACUOLE_ORGANIZATION, KEGG_LYSOSOME, GOBP_NEUROGENESIS, TAL1ALPHAE47_01, AAAYRNCTG_UNKNOWN, MODULE_99, GOBP_NEURON_APOPTOTIC_PROCESS, RYTTCCTG_ETS2_B, GOBP_MULTICELLULAR_ORGANISMAL_LEVEL_HOMEOSTASIS, REACTOME_SPHINGOLIPID_METABOLISM, GOBP_LYTIC_VACUOLE_ORGANIZATION, GOBP_SENSORY_ORGAN_DEVELOPMENT, GOBP_GLIAL_CELL_DIFFERENTIATION, FOXJ2_02

GO Biological Process (1): sulfur compound metabolic process (GO:0006790)

GO Molecular Function (4): arylsulfatase activity (GO:0004065), N-sulfoglucosamine-3-sulfatase activity (GO:0033889), metal ion binding (GO:0046872), hydrolase activity (GO:0016787)

GO Cellular Component (3): lysosome (GO:0005764), endoplasmic reticulum (GO:0005783), endoplasmic reticulum lumen (GO:0005788)

Reactome top-level categories

7 top-level categories:

CategoryPathways
Gamma carboxylation, hypusinylation, hydroxylation, and arylsulfatase activation1
Glycosphingolipid metabolism1
Post-translational protein modification1
Sphingolipid metabolism1
Metabolism of lipids1
Metabolism1
Metabolism of proteins1

GO top-level categories

10 GO namespaces:

CategoryTerms
sulfuric ester hydrolase activity2
metabolic process1
cation binding1
catalytic activity1
lytic vacuole1
cytoplasm1
endomembrane system1
intracellular membrane-bounded organelle1
endoplasmic reticulum1
intracellular organelle lumen1

Experimentally-supported GO annotations

GO terms backed by direct experimental evidence (ECO experimental codes) — 5 of 9 annotations. The rest are phylogenetic / computational / electronic (IEA).

5 experimentally-supported GO terms:

GO termNSEvidence
sulfur compound metabolic processBPdirect assay
endoplasmic reticulumCCdirect assay
lysosomeCCdirect assay
N-sulfoglucosamine-3-sulfatase activityMFdirect assay
arylsulfatase activityMFdirect assay

Protein interactions and networks

STRING

showing 15 of 750 interactions by confidence (×1000):

Protein AProtein BPartner UniProtScore
ARSGCLN6Q9NWW5625
ARSGCEP78Q5JTW2619
ARSGCLN8Q9UBY8591
ARSGCLN5O75503579
ARSGHGSNATQ68CP4576
ARSGATP13A2Q9NQ11568
ARSGUSH2AO75445560
ARSGMFSD8Q8NHS3558
ARSGCEP250Q9BV73552
ARSGPPT1P50897546
ARSGIDUAP35475535
ARSGARSKQ6UWY0532
ARSGRIMBP2O15034515
ARSGUSH1GQ495M9484
ARSGSPATA6LQ8N4H0478

IntAct

Human interaction partners of ARSG in IntAct, one row per partner (best MIscore; records = supporting IntAct interaction records).

1 partners by confidence:

PartnerInteraction typeMIscoreRecords
YDJCassociation0.3502

BioGRID (56 interactions; top human partners by supporting records): PTPRK (Affinity Capture-MS; 3 records), CANX (Affinity Capture-MS; 2 records), CGRRF1 (Affinity Capture-MS; 2 records), CTAGE5 (Affinity Capture-MS; 2 records), DPH1 (Affinity Capture-MS; 2 records), FBXO21 (Affinity Capture-MS; 2 records), GSK3A (Affinity Capture-MS; 2 records), IDE (Affinity Capture-MS; 2 records), LYZL2 (Affinity Capture-MS; 2 records), MESDC2 (Affinity Capture-MS; 2 records), QRSL1 (Affinity Capture-MS; 2 records), SUMF1 (Affinity Capture-MS; 2 records), TMEM214 (Affinity Capture-MS; 2 records), TOR3A (Affinity Capture-MS; 2 records), TUBA4A (Affinity Capture-MS; 2 records)

Disease & clinical

Genetic variants

Variant evidence for ARSG: 655 ClinVar records (42 pathogenic / likely pathogenic); 7 GWAS associations. Per-variant detail is on Sugi Variant.

ClinVar

655 variants total. Per-class counts are floors (≥ shown; pagination cap):

ClassificationCount (floor)
Pathogenic26
Likely pathogenic16
Uncertain significance336
Likely benign182
Benign33

Top pathogenic / likely-pathogenic (15)

Showing the 15 best-reviewed of 42 pathogenic / likely-pathogenic ClinVar records, ranked by ClinVar review status (expert panel → multiple submitters → single submitter), then by number of submitting labs.

Variant IDHGVSClassificationReviewSubmitters
936776NM_001267727.2(ARSG):c.982+2T>GLikely pathogeniccriteria provided, multiple submitters, no conflicts2
962127NM_001267727.2(ARSG):c.1091+1G>ALikely pathogeniccriteria provided, multiple submitters, no conflicts2
852327NM_001267727.2(ARSG):c.100C>T (p.Gln34Ter)Pathogeniccriteria provided, single submitter1
1051129NM_001267727.2(ARSG):c.454+1G>TPathogeniccriteria provided, single submitter1
1430743NM_001267727.2(ARSG):c.914dup (p.Trp306fs)Pathogeniccriteria provided, single submitter1
1443992NM_001267727.2(ARSG):c.1267del (p.Val423fs)Pathogeniccriteria provided, single submitter1
1461966NM_001267727.2(ARSG):c.922C>T (p.Gln308Ter)Pathogeniccriteria provided, single submitter1
1960975NM_001267727.2(ARSG):c.983-2A>GPathogeniccriteria provided, single submitter1
1996932NM_001267727.2(ARSG):c.1145_1146del (p.Gln382fs)Pathogeniccriteria provided, single submitter1
2010220NM_001267727.2(ARSG):c.1276G>T (p.Glu426Ter)Pathogeniccriteria provided, single submitter1
2096527NM_001267727.2(ARSG):c.1303+1G>APathogeniccriteria provided, single submitter1
2112819NM_001267727.2(ARSG):c.454+1G>APathogeniccriteria provided, single submitter1
2723864NM_001267727.2(ARSG):c.390C>A (p.Tyr130Ter)Pathogeniccriteria provided, single submitter1
2833004NM_001267727.2(ARSG):c.829dup (p.Asp277fs)Pathogeniccriteria provided, single submitter1
2860488NM_001267727.2(ARSG):c.1154_1155del (p.Arg385fs)Pathogeniccriteria provided, single submitter1

Per-variant reference — Sugi Variant

Explore ARSG’s pathogenic and likely-pathogenic variants individually — each with its ClinVar classification and conditions, applied ACMG criteria (ClinGen expert panel, where curated), the calibrated in-silico predictors (AlphaMissense, REVEL, SaProt, conservation), gnomAD frequency, and the predictor-disagreement QC signal — on Sugi Variant.

SpliceAI

Top 10 splice-impact sites by Δscore (adjacent positions with the same effect merged into one range; 38 predictions of 1,852):

Position(s)EffectΔscoreSites
17:68343602–68343603acceptor_loss1.00006
17:68343768donor_gain1.0000
17:68343792–68343793donor_loss1.00006
17:68356662acceptor_gain1.0000
17:68356665–68356666acceptor_loss1.00005
17:68306941–68306942acceptor_loss0.99005
17:68332819acceptor_gain0.9900
17:68344788donor_gain0.9900
17:68347123–68347124acceptor_loss0.99006
17:68347173–68347174donor_loss0.99006

AlphaMissense

952 missense substitutions predicted likely pathogenic (of 3,415 scored), across 253 residues. Top 20 hotspot residues, ranked by the number of likely-pathogenic substitutions (of those reachable by a single-nucleotide change), then by mean score:

ResidueLikely-pathogenic substitutionsMean am_pathogenicityMax am_pathogenicity
M16590.7600.950
D4580.9780.996
D30280.9750.995
D4480.9740.995
H13980.9700.985
D36780.9480.979
H25180.9390.974
D16480.9220.970
F15380.9200.992
S16280.9130.992
F10680.9080.987
D5080.9000.947
D27780.8750.962
D38780.8610.919
W13870.9780.998
C16770.9590.984
C8470.9570.994
K13770.9530.997
W33770.9350.981
F45670.9350.982

HPA cancer prognostics

RNA cancer specificity: Low cancer specificity

Human Protein Atlas survival analysis — favorable = higher expression predicts better survival.

2 prognostic cancer types:

CancerPrognosticp-value
Pancreatic Adenocarcinoma (TCGA)favorable8.75e-07
Kidney Renal Clear Cell Carcinoma (TCGA)favorable1.93e-05

Disease associations

OMIM: gene MIM:610008 | disease phenotypes: MIM:618144, MIM:276900

GenCC curated gene-disease

2 curated gene-disease records:

DiseaseClassificationInheritanceRecords
Usher syndrome, type 4StrongAutosomal recessive5
Usher syndrome type 3SupportiveAutosomal recessive

Genomics England panels (PanelApp)

Clinical diagnostic gene panels including this gene (8 panels, 6 green/diagnostic-grade). Confidence: green = diagnostic, amber = moderate.

8 panels:

PanelRating
Hypotonic infantgreen
Leukodystrophy, childhood onsetgreen
Likely inborn error of metabolismgreen
Lysosomal storage disordergreen
Retinal disordersgreen
Unexplained death in infancy and sudden unexplained death in childhoodgreen
Monogenic hearing lossamber
Paediatric disordersamber

Mondo (3): Usher syndrome, type 4 (MONDO:0029141), Usher syndrome (MONDO:0019501), Usher syndrome type 3 (MONDO:0016485)

Orphanet (1): Usher syndrome (Orphanet:886)

HPO phenotypes

20 phenotypes (HPO-id order):

HPOTerm
HP:0000007Autosomal recessive inheritance
HP:0000375Abnormal cochlea morphology
HP:0000407Sensorineural hearing impairment
HP:0000408Progressive sensorineural hearing impairment
HP:0000510Rod-cone dystrophy
HP:0000512Abnormal electroretinogram
HP:0000546Retinal degeneration
HP:0000572Visual loss
HP:0000575Scotoma
HP:0000662Nyctalopia
HP:0000716Depression
HP:0000739Anxiety
HP:0001105Retinal atrophy
HP:0001133Constriction of peripheral visual field
HP:0001751Abnormal vestibular function
HP:0001756Vestibular hyporeflexia
HP:0007730Iris hypopigmentation
HP:0007737Spicular pigmentation of the retina
HP:0030529Ring scotoma
HP:0030631Hyperautofluorescent macular lesion

GWAS associations

7 associations:

StudyTraitp-value
GCST90002404_446Red cell distribution width3e-13
GCST006924_5Loneliness (MTAG)1e-9
GCST002319_2Musician’s dystonia4e-9
GCST006923_13Loneliness6e-9
GCST010245_93LDL cholesterol levels2e-8
GCST006922_1Regular attendance at a religious group2e-6
GCST009261_2Pallidum volume7e-6

EFO canonical traits (from GWAS)

4 canonical traits:

EFO IDTrait name
EFO:0009592social interaction measurement
EFO:0007865loneliness measurement
EFO:0004611low density lipoprotein cholesterol measurement
EFO:0009188Red cell distribution width

MeSH disease descriptors

1 disease descriptors:

DescriptorNameTree numbers
D052245Usher SyndromesC09.218.458.341.186.500.500; C09.218.458.341.887.886; C10.597.751.418.341.186.500.500; C10.597.751.418.341.887.886; C10.597.751.941.162.625.500; C11.768.585.658.500.813; C11.966.075.375.500; C16.131.077.299.500; C16.320.290.684.500; C23.888.592.763.393.341.887.886

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (1): CHEMBL2189124 (SINGLE PROTEIN)

PharmGKB: 1 entry (CPIC guideline: no)

CTD chemical–gene interactions

49 total (human), top 30 by PubMed support.

ChemicalActions (top 5)PubMed papers
Valproic Acidaffects cotreatment, decreases expression, decreases methylation4
Benzo(a)pyreneaffects methylation, increases expression, increases methylation3
trichostatin Adecreases expression2
Phenylmercuric Acetateaffects cotreatment, decreases expression2
Tetrachlorodibenzodioxinincreases expression2
Cyclosporinedecreases expression, increases expression2
aristolochic acid Idecreases expression1
bisphenol Faffects cotreatment, increases expression1
methylmercuric chloridedecreases expression1
triphenyl phosphateaffects expression1
propionaldehydeincreases expression1
tris(2-butoxyethyl) phosphateaffects expression1
beta-lapachonedecreases expression1
tris(1,3-dichloro-2-propyl)phosphateincreases expression1
benzo(e)pyrenedecreases methylation1
yessotoxinincreases expression1
perfluorooctane sulfonic acidincreases expression1
azoxystrobinaffects expression1
deguelinincreases expression1
K 7174decreases expression1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamidedecreases expression, affects cotreatment1
thifluzamideincreases expression1
abrinedecreases expression1
pyrachlostrobinincreases expression1
dorsomorphinaffects cotreatment, decreases expression1
bisphenol Saffects cotreatment, increases expression1
jinfukangincreases expression1
(+)-JQ1 compounddecreases expression1
PP242increases expression1
Sunitinibdecreases expression1

ChEMBL screening assays

2 unique, capped per target: 2 binding

Representative assays (with source publication via chembl_document):

Assay IDTypeDescriptionSource paper
CHEMBL2209028BindingTime dependent inhibition of human aryl sulfatase G at 0.1 uM to 1000 uM by para-nitrocatechol sulfate-based colorimetric assayEvaluation of sulfatase-directed quinone methide traps for proteomics. — *Bioorg Med Chem*

Clinical trials (associated diseases)

Via MONDO — disease-level, not drug-specific.

showing 60 of 73 trials:

NCTPhaseStatusTitle
NCT04224207Phase 3COMPLETEDManagement of Retinitis Pigmentosa by Mesenchymal Stem Cells by Wharton’s Jelly Derived Mesenchymal Stem Cells
NCT07082855Phase 3NOT_YET_RECRUITINGA Multicenter, Randomized, Double-Blind, Controlled Clinical Study of Minocycline for the Treatment of Retinitis Pigmentosa
NCT07290530Phase 3NOT_YET_RECRUITING24-Month Trial of NPI-001 for the Preservation of Photoreceptors in Retinitis Pigmentosa Associated With Usher Syndrome
NCT07710196Phase 3NOT_YET_RECRUITINGA 24-Month Trial of NPI-001 for the Preservation of Photoreceptors in Retinitis Pigmentosa Associated With Usher Syndrome
NCT01530659Phase 2COMPLETEDRetinal Imaging in CNTF -Releasing Encapsulated Cell Implant Treated Patients for Early-stage Retinitis Pigmentosa
NCT03763227Phase 2COMPLETEDIntravitreal Ranibizumab (Lucentis®) in the Treatment of Non-leaking Macular Cysts in Retinal Dystrophy
NCT04068207Phase 2COMPLETEDMinocycline Treatment in Retinitis Pigmentosa
NCT04945772Phase 2COMPLETEDEfficacy and Safety of MCO-010 Optogenetic Therapy in Adults With Retinitis Pigmentosa [RESTORE]
NCT02065011Phase 2ACTIVE_NOT_RECRUITINGA Study to Determine the Long-Term Safety, Tolerability and Biological Activity of SAR421869 in Patients With Usher Syndrome Type 1B
NCT06592131Phase 1NOT_YET_RECRUITINGBF844 Safety and Pharmacokinetic Study in Healthy Volunteers
NCT05902962Phase 1COMPLETEDSAD of IVT VP-001 in PRPF31 Mutation-Associated Retinal Dystrophy Subjects
NCT06319872Phase 1RECRUITINGThe Effects of Disulfiram (Antabuse®) on Visual Acuity in Patients With Retinal Degeneration
NCT06455826Phase 1COMPLETEDMAD of IVT VP-001 in PRPF31 Mutation-Associated Retinal Dystrophy Subjects (Wallaby)
NCT02230072Phase 1COMPLETEDFetoscopic Meningomyelocele Repair Study
NCT04855045Phase 2/3UNKNOWNAn Open-label, Dose Escalation and Double-masked, Randomized, Controlled Trial Evaluating Safety and Tolerability of Sepofarsen in Children (<8 Years of Age) With LCA10 Caused by Mutations in the CEP290 Gene.
NCT03872479Phase 1/2UNKNOWNSingle Ascending Dose Study in Participants With LCA10
NCT04123626Phase 1/2ACTIVE_NOT_RECRUITINGA Study to Evaluate the Safety and Tolerability of QR-1123 in Subjects With Autosomal Dominant Retinitis Pigmentosa Due to the P23H Mutation in the RHO Gene
NCT04545736Phase 1/2ACTIVE_NOT_RECRUITINGOral Metformin for Treatment of ABCA4 Retinopathy
NCT06212297Phase 1/2ACTIVE_NOT_RECRUITINGFellow-eye Study (FE) of LX101 in Subjects With Inherited Retinal Dystrophy
NCT06852963Phase 1/2ACTIVE_NOT_RECRUITINGA Repeat-Dose, Open-Label, Two Arm Safety and Efficacy Study of Two Doses of VP-001 Administered Intravitreally in Participants With Confirmed PRPF31 Mutation-Associated Retinal Dystrophy, Including Participants Previously Treated With VP001
NCT07177196Phase 1/2ACTIVE_NOT_RECRUITINGPersonalized Antisense Oligonucleotide Therapy for a Single Participant With PRPH2 Mutation Associated With Retinal Dystrophy
NCT07063030Early Phase 1RECRUITINGA Study of LX107 Gene Therapy in AIPL1-IRD Patients
NCT07656753Early Phase 1RECRUITINGSafety and Efficacy Study of PUMCH-E111 Injection in Subjects With RLBP1 Related Inherited Retinal Dystrophy
NCT01546181Not specifiedCOMPLETEDRetinal Imaging by Adaptive Optics in Healthy Eyes and During Retinal and General Diseases
NCT01876147Not specifiedCOMPLETEDVisual and Functional Assessment in Low Vision Patients
NCT01920867Not specifiedUNKNOWNStem Cell Ophthalmology Treatment Study
NCT02014389Not specifiedRECRUITINGEvaluation of Objective Perimetry Using Chromatic Multifocal Pupillometer
NCT02983305Not specifiedCOMPLETEDOptical Head-Mounted Display Technology for Low Vision Rehabilitation
NCT03592017Not specifiedCOMPLETEDPerformance of Long-wavelength Autofluorescence Imaging
NCT03662386Not specifiedTERMINATEDProspective Analysis of Genotype-phenotype Correlations Observed in a Large Cohort of Patients With Hereditary Retinal Dystrophies - GEPHIRD
NCT03691168Not specifiedUNKNOWNMulti-center Observation of the Natural Course of Inherited Retinal Dystrophies
NCT03843840Not specifiedCOMPLETEDDual Wavelength OCT
NCT03853252Not specifiedCOMPLETEDiPS Cells of Patients for Models of Retinal Dystrophies
NCT05130385Not specifiedUNKNOWNHigh Resolution Optical Coherence Tomography
NCT05294978Not specifiedRECRUITINGEyeConic: Qualification for Cone-Optogenetics
NCT05573984Not specifiedACTIVE_NOT_RECRUITINGNatural History of PRPF31 Mutation-Associated Retinal Dystrophy
NCT05793515Not specifiedCOMPLETEDMechanisms of Inherited Retinal Dystrophies Using Whole Genome Sequencing and in Vitro and in Vivo Models
NCT05820100Not specifiedCOMPLETEDObservational Study to Assess the Reliability and Validity of the MLYMT and MLSDT
NCT05976139Not specifiedRECRUITINGMicropulsed Laser in Patients With Macular Oedema in Retinal Dystrophies
NCT06162585Not specifiedACTIVE_NOT_RECRUITINGNon-Interventional Long Term Follow-up Study of Participants Previously Enrolled in the RESTORE Study
NCT06177977Not specifiedRECRUITINGSS-HH-OCT as a Novel Diagnostic Modality for Early-Onset Retinal Dystrophies (EORDs)
NCT06375239Not specifiedRECRUITINGObservational Study to Assess Endpoint Operational Feasibility & Measurement Properties in Patients with Retinal Degeneration
NCT06908161Not specifiedNOT_YET_RECRUITINGFunctional Assessments in Vision Impairment
NCT07085533Not specifiedRECRUITINGNatural History Study of Inherited Retinal Diseases
NCT07502664Not specifiedRECRUITINGDevelopment and Evaluation of Functional Visual Field and Navigation Endpoints in Moderate to Profound Inherited Retinal Disease (DEFINE-IRD)
NCT07529041Not specifiedENROLLING_BY_INVITATIONReal-time Acoustic Biofeedback for Enhancing Fixation Stability: A Proof-of-concept Study to Improve Ophthalmic Imaging Diagnostic Quality
NCT01505062Phase 1/2TERMINATEDStudy of SAR421869 in Participants With Retinitis Pigmentosa Associated With Usher Syndrome Type 1B
NCT04355689Phase 1/2COMPLETEDSafety and Efficacy of NPI-001 Tablets for RP Associated With Usher Syndrome
NCT06789445Phase 1/2RECRUITINGA Study to Investigate the Safety of OpCT-001 in Adults Who Have Primary Photoreceptor Disease (CLARICO)
NCT00004345Not specifiedTERMINATEDStudy of Dietary N-3 Fatty Acids in Patients With Retinitis Pigmentosa and Usher Syndrome
NCT00016471Not specifiedCOMPLETEDA Genetic Analysis of Usher Syndrome in Ashkenazi Jews
NCT00106743Not specifiedCOMPLETEDNatural History and Genetic Studies of Usher Syndrome
NCT01954953Not specifiedUNKNOWNClinical and Genetic Examination of Usher Syndrome Patients’ Cohort in Europe
NCT02435940Not specifiedRECRUITINGInherited Retinal Degenerative Disease Registry
NCT03319524Not specifiedCOMPLETEDClinical and Genetic Testing of Patients With Usher Syndrome
NCT03901391Not specifiedCOMPLETEDProspective Open Clinical and Genetic Study of Patients With Retinitis Pigmentosa
NCT03990727Not specifiedUNKNOWNPhenotype Correlates Genotype of Inherited Retina Dystrophies, Retinitis Pigmentosa, Con>Rod Dystrophies.
NCT04665726Not specifiedRECRUITINGNatural History Study of Usher Syndrome ( Light4Deaf )
NCT04906135Not specifiedCOMPLETEDAuditory Neural Function in Implanted Patients With Usher Syndrome
NCT05355415Not specifiedRECRUITINGAdaptive Optics Imaging of Outer Retinal Diseases