ARSD
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Also known as ASD
Summary
ARSD (arylsulfatase D, HGNC:717) is a protein-coding gene on chromosome Xp22.33, encoding Arylsulfatase D (P51689).
The protein encoded by this gene is a member of the sulfatase family. Sulfatases are essential for the correct composition of bone and cartilage matrix. The encoded protein is postranslationally glycosylated and localized to the lysosome. This gene is located within a cluster of similar arylsulfatase genes on chromosome X. A related pseudogene has been identified in the pseudoautosomal region of chromosome Y.
Source: NCBI Gene 414 — RefSeq curated summary.
At a glance
- Clinical variants (ClinVar): 234 total — 19 pathogenic, 1 likely-pathogenic
- Dosage sensitivity (ClinGen): haploinsufficiency no evidence, triplosensitivity no evidence
- MANE Select transcript:
NM_001669
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:717 |
| Approved symbol | ARSD |
| Name | arylsulfatase D |
| Location | Xp22.33 |
| Locus type | gene with protein product |
| Status | Approved |
| Aliases | ASD |
| Ensembl gene | ENSG00000006756 |
| Ensembl biotype | protein_coding |
| OMIM | 300002 |
| Entrez | 414 |
Gene structure
Transcript identifiers
Ensembl transcripts: 10 — 5 protein_coding, 3 protein_coding_CDS_not_defined, 1 retained_intron, 1 nonsense_mediated_decay
ENST00000217890, ENST00000381154, ENST00000458014, ENST00000481340, ENST00000494870, ENST00000495294, ENST00000559324, ENST00000954947, ENST00000954948, ENST00000954949
RefSeq mRNA: 2 — MANE Select: NM_001669
NM_001669, NM_009589
CCDS: CCDS35196
Canonical transcript exons
ENST00000381154 — 10 exons
| Exon | Start | End |
|---|---|---|
| ENSE00000394540 | 2910659 | 2910793 |
| ENSE00001487651 | 2903972 | 2907632 |
| ENSE00001603877 | 2909817 | 2909979 |
| ENSE00001789561 | 2908721 | 2908842 |
| ENSE00002543185 | 2929232 | 2929339 |
| ENSE00003470838 | 2921903 | 2922024 |
| ENSE00003477938 | 2917804 | 2918227 |
| ENSE00003496249 | 2920601 | 2920723 |
| ENSE00003641752 | 2925616 | 2925765 |
| ENSE00003690102 | 2915556 | 2915692 |
Expression profiles
Bgee: expression breadth ubiquitous, 263 present calls, max score 97.05.
FANTOM5 (CAGE): breadth ubiquitous, TPM avg 12.6900 / max 120.8853, expressed in 1635 samples.
FANTOM5 promoters (3 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 198302 | 6.7718 | 1574 |
| 198301 | 4.1342 | 1488 |
| 198303 | 1.7840 | 945 |
Top tissues by expression
291 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| renal medulla | UBERON:0000362 | 97.05 | gold quality |
| cardia of stomach | UBERON:0001162 | 94.29 | gold quality |
| pylorus | UBERON:0001166 | 94.21 | gold quality |
| bronchial epithelial cell | CL:0002328 | 93.30 | gold quality |
| tendon of biceps brachii | UBERON:0008188 | 93.10 | gold quality |
| nipple | UBERON:0002030 | 92.15 | gold quality |
| parotid gland | UBERON:0001831 | 92.03 | gold quality |
| vena cava | UBERON:0004087 | 91.95 | silver quality |
| buccal mucosa cell | CL:0002336 | 91.43 | gold quality |
| mammary duct | UBERON:0001765 | 91.24 | gold quality |
| body of pancreas | UBERON:0001150 | 91.22 | gold quality |
| endometrium | UBERON:0001295 | 91.16 | gold quality |
| pharyngeal mucosa | UBERON:0000355 | 91.12 | gold quality |
| right uterine tube | UBERON:0001302 | 91.04 | gold quality |
| olfactory segment of nasal mucosa | UBERON:0005386 | 90.09 | gold quality |
| mucosa of sigmoid colon | UBERON:0004993 | 89.77 | gold quality |
| mucosa of paranasal sinus | UBERON:0005030 | 89.56 | gold quality |
| superior surface of tongue | UBERON:0007371 | 89.30 | gold quality |
| body of stomach | UBERON:0001161 | 89.16 | gold quality |
| right lobe of liver | UBERON:0001114 | 88.99 | gold quality |
| colonic mucosa | UBERON:0000317 | 88.92 | gold quality |
| body of tongue | UBERON:0011876 | 88.92 | silver quality |
| pancreas | UBERON:0001264 | 88.79 | gold quality |
| fundus of stomach | UBERON:0001160 | 88.78 | gold quality |
| trachea | UBERON:0003126 | 88.70 | gold quality |
| tongue | UBERON:0001723 | 88.54 | silver quality |
| stomach | UBERON:0000945 | 88.53 | gold quality |
| duodenum | UBERON:0002114 | 88.39 | gold quality |
| monocyte | CL:0000576 | 88.34 | gold quality |
| bronchus | UBERON:0002185 | 88.26 | gold quality |
Single-cell (SCXA)
Detected in 2 experiment(s), a significant marker in 1.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-ANND-3 | yes | 16.13 |
| E-MTAB-7303 | no | 573.53 |
Regulation
Is transcription factor: no
miRNA regulators (miRDB)
111 targeting ARSD, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):
| miRNA | Max score | Avg score | miRNA target_count |
|---|---|---|---|
| HSA-MIR-7110-3P | 100.00 | 73.18 | 2486 |
| HSA-MIR-4425 | 100.00 | 67.59 | 1049 |
| HSA-MIR-3613-3P | 100.00 | 76.36 | 7965 |
| HSA-MIR-371B-5P | 99.99 | 75.34 | 4759 |
| HSA-MIR-4531 | 99.99 | 69.70 | 3181 |
| HSA-MIR-6077 | 99.99 | 68.04 | 2299 |
| HSA-MIR-548AW | 99.99 | 72.57 | 3559 |
| HSA-MIR-1184 | 99.99 | 68.19 | 1458 |
| HSA-MIR-373-5P | 99.98 | 75.36 | 4753 |
| HSA-MIR-616-5P | 99.98 | 75.58 | 4775 |
| HSA-MIR-6778-3P | 99.96 | 67.29 | 2693 |
| HSA-MIR-1250-3P | 99.96 | 70.04 | 4038 |
| HSA-MIR-3605-5P | 99.96 | 67.12 | 932 |
| HSA-MIR-3910 | 99.95 | 71.13 | 2227 |
| HSA-MIR-22-3P | 99.93 | 68.13 | 917 |
| HSA-MIR-6744-5P | 99.93 | 66.82 | 748 |
| HSA-MIR-1-3P | 99.93 | 72.35 | 1914 |
| HSA-MIR-206 | 99.93 | 72.50 | 1893 |
| HSA-MIR-6721-5P | 99.93 | 68.92 | 2981 |
| HSA-MIR-4778-3P | 99.93 | 70.40 | 1818 |
| HSA-MIR-613 | 99.91 | 71.50 | 1710 |
| HSA-MIR-153-5P | 99.89 | 73.86 | 6317 |
| HSA-MIR-6780A-5P | 99.88 | 66.69 | 2776 |
| HSA-MIR-4728-5P | 99.85 | 69.39 | 4718 |
| HSA-MIR-6079 | 99.84 | 68.54 | 1170 |
| HSA-MIR-6785-5P | 99.82 | 68.68 | 4428 |
| HSA-MIR-1273H-5P | 99.77 | 66.32 | 2471 |
| HSA-MIR-4319 | 99.76 | 69.83 | 2586 |
| HSA-MIR-6764-5P | 99.75 | 67.89 | 2304 |
| HSA-MIR-556-3P | 99.74 | 68.75 | 1203 |
Functional genomics
ClinGen dosage: haploinsufficiency 0 (no evidence), triplosensitivity 0 (no evidence). ClinGen Gene Dosage Map
Literature-anchored findings (GeneRIF, showing 3)
- ARSD protein level and IGVH were independently associated with the need for therapy of chronic lymphocytic leukemia patients. (PMID:22820137)
- Evaluation of Arylsulfatase D (ARSD) and long noncoding RNA ARSD-AS1 gene expression in breast cancer patients and their association with oncogenic transcription factors. (PMID:33099917)
- ARSD, a novel ERalpha downstream target gene, inhibits proliferation and migration of breast cancer cells via activating Hippo/YAP pathway. (PMID:34725332)
Cross-species orthologs
9 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | arsh | ENSDARG00000002299 |
| drosophila_melanogaster | CG18278 | FBGN0033836 |
| drosophila_melanogaster | CG7408 | FBGN0036765 |
| drosophila_melanogaster | CG7402 | FBGN0036768 |
| drosophila_melanogaster | Sulf1 | FBGN0040271 |
| drosophila_melanogaster | CG32191 | FBGN0052191 |
| drosophila_melanogaster | CG30059 | FBGN0260475 |
| caenorhabditis_elegans | WBGENE00006308 | |
| caenorhabditis_elegans | WBGENE00006309 |
Paralogs (16): IDS (ENSG00000010404), ARSF (ENSG00000062096), ARSA (ENSG00000100299), STS (ENSG00000101846), ARSB (ENSG00000113273), GNS (ENSG00000135677), SULF1 (ENSG00000137573), GALNS (ENSG00000141012), ARSG (ENSG00000141337), ARSL (ENSG00000157399), ARSK (ENSG00000164291), ARSJ (ENSG00000180801), SGSH (ENSG00000181523), ARSI (ENSG00000183876), SULF2 (ENSG00000196562), ARSH (ENSG00000205667)
Protein
Protein identifiers
Arylsulfatase D — P51689 (reviewed: P51689)
All UniProt accessions (4): P51689, A0A140VK06, H0YMY1, H7C327
UniProt curated annotations — full annotation on UniProt →
Subcellular location. Lysosome.
Tissue specificity. Expressed in the pancreas, kidney, liver, lung, placenta, brain and heart.
Post-translational modifications. 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.
Cofactor. Binds 1 Ca(2+) ion per subunit.
Similarity. Belongs to the sulfatase family.
Isoforms (3)
| UniProt ID | Names | Canonical? |
|---|---|---|
| P51689-1 | 1 | yes |
| P51689-2 | 2, Beta | |
| P51689-3 | 3, Alpha |
RefSeq proteins (1): NP_001660* (*=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR000917 | Sulfatase_N | Domain |
| IPR017850 | Alkaline_phosphatase_core_sf | Homologous_superfamily |
| IPR024607 | Sulfatase_CS | Conserved_site |
| IPR050738 | Sulfatase | Family |
Pfam: PF00884, PF14707
UniProt features (22 total): binding site 8, glycosylation site 3, splice variant 3, sequence variant 3, active site 2, signal peptide 1, chain 1, modified residue 1
Structure
Experimental structures (PDB)
0 structures.
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-P51689-F1 | 92.71 | 0.88 |
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): 89 (nucleophile); 150
Ligand- & substrate-binding residues (8): 357; 381; 49; 50; 89 (via 3-oxoalanine); 148; 304; 356
Post-translational modifications (1): 89
Glycosylation sites (3): 61, 128, 347
Function
Pathways and Gene Ontology
Reactome pathways
9 pathways
| ID | Pathway |
|---|---|
| R-HSA-1663150 | The activation of arylsulfatases |
| R-HSA-9840310 | Glycosphingolipid catabolism |
| R-HSA-1430728 | Metabolism |
| R-HSA-163841 | Gamma carboxylation, hypusinylation, hydroxylation, and arylsulfatase activation |
| R-HSA-1660662 | Glycosphingolipid metabolism |
| R-HSA-392499 | Metabolism of proteins |
| R-HSA-428157 | Sphingolipid metabolism |
| R-HSA-556833 | Metabolism of lipids |
| R-HSA-597592 | Post-translational protein modification |
MSigDB gene sets: 69 (showing top):
LINDGREN_BLADDER_CANCER_CLUSTER_3_DN, SENGUPTA_NASOPHARYNGEAL_CARCINOMA_DN, REACTOME_SPHINGOLIPID_METABOLISM, BASAKI_YBX1_TARGETS_DN, RODRIGUES_THYROID_CARCINOMA_POORLY_DIFFERENTIATED_DN, GOCC_ENDOPLASMIC_RETICULUM_LUMEN, GOMF_HYDROLASE_ACTIVITY_ACTING_ON_ESTER_BONDS, THUM_SYSTOLIC_HEART_FAILURE_DN, GOMF_SULFURIC_ESTER_HYDROLASE_ACTIVITY, GOMF_ARYLSULFATASE_ACTIVITY, DODD_NASOPHARYNGEAL_CARCINOMA_DN, RODRIGUES_THYROID_CARCINOMA_ANAPLASTIC_DN, REACTOME_POST_TRANSLATIONAL_PROTEIN_MODIFICATION, WAMUNYOKOLI_OVARIAN_CANCER_LMP_UP, chrXp22
GO Biological Process (0):
GO Molecular Function (3): arylsulfatase activity (GO:0004065), metal ion binding (GO:0046872), hydrolase activity (GO:0016787)
GO Cellular Component (3): lysosome (GO:0005764), endoplasmic reticulum lumen (GO:0005788), membrane (GO:0016020)
Reactome top-level categories
Rollup of top-7 pathways:
| Category | Pathways |
|---|---|
| Gamma carboxylation, hypusinylation, hydroxylation, and arylsulfatase activation | 1 |
| Glycosphingolipid metabolism | 1 |
| Post-translational protein modification | 1 |
| Sphingolipid metabolism | 1 |
| Metabolism of lipids | 1 |
| Metabolism | 1 |
| Metabolism of proteins | 1 |
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| sulfuric ester hydrolase activity | 1 |
| cation binding | 1 |
| catalytic activity | 1 |
| lytic vacuole | 1 |
| endoplasmic reticulum | 1 |
| intracellular organelle lumen | 1 |
| cellular anatomical structure | 1 |
Protein interactions and networks
STRING
950 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| ARSD | XG | P55808 | 767 |
| ARSD | GET3 | O43681 | 669 |
| ARSD | PRKX | P51817 | 647 |
| ARSD | CD99 | P14209 | 618 |
| ARSD | PNPLA4 | P41247 | 595 |
| ARSD | XKR3 | Q5GH77 | 570 |
| ARSD | GYG2 | O15488 | 528 |
| ARSD | SHOX | O15266 | 519 |
| ARSD | TBL1X | O60907 | 488 |
| ARSD | ZFX | P17010 | 474 |
| ARSD | RPS4X | P12631 | 466 |
| ARSD | AS3MT | Q9HBK9 | 460 |
| ARSD | PUDP | Q08623 | 448 |
| ARSD | EIF2S3 | P41091 | 443 |
| ARSD | C8orf82 | Q6P1X6 | 434 |
IntAct
2 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| ARSL | FBXO21 | psi-mi:“MI:0914”(association) | 0.350 |
BioGRID (4): ARSD (Proximity Label-MS), ARSD (Affinity Capture-MS), ARSD (Affinity Capture-MS), ARSD (Protein-peptide)
ESM2 similar proteins: A6H603, A6H751, A7Z052, D6MZJ6, O35710, O43304, O60906, O70572, O95382, O95479, P21709, P48760, P49184, P51689, P51690, P51839, P79942, Q05932, Q09M05, Q149M9, Q28DT3, Q2QDE7, Q2QDE9, Q2QDF0, Q2QDF1, Q5XIA3, Q60750, Q60HH5, Q643R3, Q68G58, Q6NVG1, Q6ZPS2, Q76MJ5, Q7TNJ2, Q8NFF5, Q90YK5, Q91X21, Q91XB0, Q924L9, Q924T7
Diamond homologs: P08842, P14000, P15289, P15589, P20713, P34059, P50427, P50428, P50473, P51689, P51690, P54793, Q08DD1, Q32KH5, Q32KH8, Q32KH9, Q32KJ6, Q32KJ9, Q3TYD4, Q571E4, Q5FYA8, Q5FYB0, Q60HH5, Q8BM89, Q8WNQ7, Q9X759, T2KMG4, T2KN90, P22304, P31447, Q08890, Q32KI9, Q32KJ8, Q5FYB1, Q96EG1, P33727, P50430, Q32KH7, Q8A2F6, Q8A2H2
SIGNOR signaling
0 interactions.
Disease & clinical
Clinical variants and AI predictions
ClinVar
234 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 19 |
| Likely pathogenic | 1 |
| Uncertain significance | 101 |
| Likely benign | 26 |
| Benign | 4 |
Top pathogenic / likely-pathogenic (20)
| Variant ID | HGVS | Classification |
|---|---|---|
| 1073287 | NC_000023.10:g.(?2838632)(2878441_?)del | Pathogenic |
| 1339979 | GRCh37/hg19 Xp22.33-22.31(chrX:168546-6449837)x0 | Pathogenic |
| 1340700 | GRCh37/hg19 Xp22.33-22.32(chrX:1-4567282)x1 | Pathogenic |
| 147582 | GRCh38/hg38 Xp22.33-22.31(chrX:2765636-6317066)x1 | Pathogenic |
| 150040 | GRCh38/hg38 Xp22.33(chrX:1718254-3700497)x0 | Pathogenic |
| 154679 | GRCh38/hg38 Xp22.33-22.31(chrX:2790845-6495923)x0 | Pathogenic |
| 1708269 | GRCh37/hg19 Xp22.33(chrX:2696691-3666623)x1 | Pathogenic |
| 1807716 | GRCh37/hg19 Xp22.33(chrX:2703823-3354304)x1 | Pathogenic |
| 2422194 | NC_000023.10:g.(?2835825)(2878441_?)del | Pathogenic |
| 253483 | GRCh37/hg19 Xp22.33(chrX:71267-3248235)x1 | Pathogenic |
| 3062488 | GRCh37/hg19 Xp22.33-22.31(chrX:168546-7545375) | Pathogenic |
| 3148849 | GRCh37/hg19 Xp22.33-22.32(chrX:168552-5388161)x1 | Pathogenic |
| 3391943 | GRCh37/hg19 Xp22.33-22.32(chrX:539723-5411986)x0 | Pathogenic |
| 441781 | GRCh37/hg19 Xp22.33(chrX:168546-3259868)x0 | Pathogenic |
| 441807 | GRCh37/hg19 Xp22.33(chrX:168547-3880686)x0 | Pathogenic |
| 442508 | GRCh37/hg19 Xp22.33-22.31(chrX:168546-7721374)x1 | Pathogenic |
| 443486 | GRCh37/hg19 Xp22.33-22.32(chrX:168546-5896155)x1 | Pathogenic |
| 687367 | GRCh37/hg19 Xp22.33-22.31(chrX:169790-8465951)x1 | Pathogenic |
| 816485 | GRCh37/hg19 Xp22.33-22.31(chrX:60814-6043278)x0 | Pathogenic |
| 4683015 | GRCh37/hg19 Xp22.33-22.31(chrX:168547-8165052)x3 | Likely pathogenic |
SpliceAI
1761 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| X:2908719:A:AC | donor_gain | 1.0000 |
| X:2908719:ACTGT:A | donor_gain | 1.0000 |
| X:2908720:C:CC | donor_gain | 1.0000 |
| X:2908720:CTGT:C | donor_gain | 1.0000 |
| X:2908720:CTGTC:C | donor_gain | 1.0000 |
| X:2917799:CTTA:C | donor_loss | 1.0000 |
| X:2917800:TTA:T | donor_loss | 1.0000 |
| X:2917801:TACCT:T | donor_loss | 1.0000 |
| X:2917803:C:CT | donor_loss | 1.0000 |
| X:2908712:GGTAC:G | donor_loss | 0.9900 |
| X:2908713:GTAC:G | donor_loss | 0.9900 |
| X:2908714:TAC:T | donor_loss | 0.9900 |
| X:2908715:ACT:A | donor_loss | 0.9900 |
| X:2908716:CT:C | donor_loss | 0.9900 |
| X:2908717:TC:T | donor_loss | 0.9900 |
| X:2908718:CA:C | donor_loss | 0.9900 |
| X:2908719:A:T | donor_loss | 0.9900 |
| X:2908842:CCTGA:C | acceptor_gain | 0.9900 |
| X:2908850:C:CT | acceptor_gain | 0.9900 |
| X:2908851:A:C | acceptor_gain | 0.9900 |
| X:2909806:T:C | donor_gain | 0.9900 |
| X:2909812:CGTA:C | donor_loss | 0.9900 |
| X:2909815:A:T | donor_loss | 0.9900 |
| X:2909975:CCCAC:C | acceptor_gain | 0.9900 |
| X:2909976:CCAC:C | acceptor_gain | 0.9900 |
| X:2909976:CCACC:C | acceptor_gain | 0.9900 |
| X:2909977:CAC:C | acceptor_gain | 0.9900 |
| X:2909977:CACC:C | acceptor_gain | 0.9900 |
| X:2910158:C:CA | donor_gain | 0.9900 |
| X:2917802:A:AC | donor_gain | 0.9900 |
AlphaMissense
3866 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| X:2918220:C:A | W149C | 0.999 |
| X:2918220:C:G | W149C | 0.999 |
| X:2918222:A:G | W149R | 0.999 |
| X:2918222:A:T | W149R | 0.999 |
| X:2921943:G:C | S92R | 0.997 |
| X:2921943:G:T | S92R | 0.997 |
| X:2921945:T:G | S92R | 0.997 |
| X:2918157:A:C | F170L | 0.994 |
| X:2918157:A:T | F170L | 0.994 |
| X:2918159:A:G | F170L | 0.994 |
| X:2918224:T:A | K148I | 0.994 |
| X:2918148:G:C | F173L | 0.993 |
| X:2918148:G:T | F173L | 0.993 |
| X:2918150:A:G | F173L | 0.993 |
| X:2910727:T:A | D356V | 0.991 |
| X:2907348:A:G | W569R | 0.990 |
| X:2907348:A:T | W569R | 0.990 |
| X:2918213:C:A | G152C | 0.990 |
| X:2909876:G:C | S413R | 0.989 |
| X:2909876:G:T | S413R | 0.989 |
| X:2909878:T:G | S413R | 0.989 |
| X:2918158:A:G | F170S | 0.989 |
| X:2918221:C:G | W149S | 0.989 |
| X:2907502:A:C | F517L | 0.988 |
| X:2907502:A:T | F517L | 0.988 |
| X:2907504:A:G | F517L | 0.988 |
| X:2909955:T:A | E387V | 0.988 |
| X:2917907:A:G | W254R | 0.988 |
| X:2917907:A:T | W254R | 0.988 |
| X:2918227:C:A | G147V | 0.988 |
dbSNP variants (sampled 300 via entrez): RS1000070987 (X:2929980 C>T), RS1000145381 (X:2926708 T>C), RS1000682894 (X:2912675 C>T), RS1000897865 (X:2923173 C>G,T), RS1001189832 (X:2910244 TG>T), RS1001371503 (X:2923552 T>G), RS1001623819 (X:2931067 C>A,T), RS1001819771 (X:2922310 G>A), RS1002145079 (X:2913358 GC>G), RS1002522364 (X:2914242 T>A,C), RS1002885191 (X:2924021 A>C), RS1003048932 (X:2904092 G>C), RS1003151078 (X:2915060 A>G), RS1003204952 (X:2914561 CTG>C), RS1003471049 (X:2916284 T>G)
Disease associations
OMIM: gene MIM:300002 | disease phenotypes: MIM:302950, MIM:602497
GenCC curated gene-disease
Mondo (3): X-linked chondrodysplasia punctata 1 (MONDO:0010555), Klinefelter syndrome (MONDO:0006823), chondrodysplasia punctata, brachytelephalangic, autosomal (MONDO:0011238)
Orphanet (1): Brachytelephalangic chondrodysplasia punctata (Orphanet:79345)
HPO phenotypes
0 total (0 of 0 shown, HPO-id order):
GWAS associations
0 associations (top):
MeSH disease descriptors (1)
| Descriptor | Name | Tree numbers |
|---|---|---|
| D007713 | Klinefelter Syndrome | C12.050.351.875.253.795.500; C12.200.706.316.795.500; C12.800.316.795.500; C16.131.260.830.835.500; C16.131.939.316.795.500; C16.320.180.830.835.500; C19.391.119.795.500; C19.391.482.629 |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: no
PharmGKB: 1 entry (VIP=true, CPIC=false)
CTD chemical–gene interactions
41 total (human), top 30 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| Benzo(a)pyrene | decreases expression, increases methylation | 3 |
| Valproic Acid | affects expression, decreases expression, increases expression | 3 |
| sodium arsenite | affects methylation, increases expression | 2 |
| entinostat | decreases expression, affects cotreatment | 2 |
| (+)-JQ1 compound | increases expression | 2 |
| Vorinostat | affects cotreatment, increases expression, decreases expression | 2 |
| Air Pollutants | decreases expression | 2 |
| GSK-J4 | decreases expression | 1 |
| methylmercuric chloride | decreases expression | 1 |
| propionaldehyde | decreases expression | 1 |
| bisphenol A | increases expression | 1 |
| mono-(2-ethylhexyl)phthalate | increases expression | 1 |
| butyraldehyde | decreases expression | 1 |
| potassium chromate(VI) | increases expression | 1 |
| nickel sulfate | increases expression | 1 |
| pentanal | decreases expression | 1 |
| 4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide | increases expression, affects cotreatment, decreases expression | 1 |
| belinostat | decreases expression | 1 |
| abrine | decreases expression | 1 |
| dorsomorphin | decreases expression, increases expression, affects cotreatment | 1 |
| NSC 689534 | affects binding, increases expression | 1 |
| Temozolomide | decreases expression | 1 |
| Acetaminophen | increases expression | 1 |
| Aldehydes | decreases expression | 1 |
| Carbamazepine | affects expression | 1 |
| Copper | affects binding, increases expression | 1 |
| Coumestrol | decreases expression | 1 |
| Dichlorodiphenyl Dichloroethylene | decreases expression | 1 |
| Doxorubicin | decreases expression | 1 |
| Methotrexate | decreases expression | 1 |
Clinical trials (associated diseases)
36 trials via MONDO — disease-level, not drug-specific.
| Trial | Phase | Status | Title |
|---|---|---|---|
| NCT02408445 | PHASE4 | COMPLETED | Body Composition in Infants With Klinefelter Syndrome and Effects of Testosterone Treatment |
| NCT03325647 | PHASE4 | COMPLETED | TESTO: Testosterone Effects on Short-Term Outcomes in Infants With XXY |
| NCT05498090 | PHASE4 | UNKNOWN | Interrogating Fatty Acid Metabolism Impairment and Clinical Correlates in Males with Klinefelter Syndrome |
| NCT06294990 | PHASE4 | RECRUITING | Klinefelter Syndrome and Testosterone Treatment in Puberty |
| NCT05586802 | PHASE3 | RECRUITING | Sex Steroids Balance for Metabolic and Reproductive Health in Klinefelter Syndrome |
| NCT00348946 | PHASE2 | COMPLETED | Androgen Effect on Klinefelter Syndrome Motor Outcome |
| NCT02061384 | PHASE2 | COMPLETED | RA-2 13-cis Retinoic Acid (Isotretinoin) |
| NCT01206270 | PHASE2/PHASE3 | COMPLETED | Androgen for Leydig Cell Proliferation |
| NCT00347464 | Not specified | WITHDRAWN | Adaptive Behavior Assessment of Men With 49, XXXXY, Klinefelter Syndrome |
| NCT00523835 | Not specified | COMPLETED | Body Composition, Bone Mineral Density, Insulin Sensitivity and Echocardiographic Measurements in Klinefelter Syndrome |
| NCT00891852 | Not specified | UNKNOWN | Non-Invasive Determination of Fetal Chromosome Abnormalities |
| NCT00896272 | Not specified | COMPLETED | Adaptation Among Adolescents and Adults With Klinefelter Syndrome |
| NCT00999310 | Not specified | COMPLETED | Neuropsychologic, Neuroradiologic, Endocrinologic, and Genetic Aspects of Klinefelter Syndrome |
| NCT01585831 | Not specified | COMPLETED | Study of Psychological and Motor Effects of Testosterone in Adolescents With XXY/Klinefelter Syndrome |
| NCT01678261 | Not specified | COMPLETED | X-chromosome Inactivation, Epigenetics and the Transcriptome |
| NCT01690013 | Not specified | COMPLETED | Life Quality and Health in Patients With Klinefelter Syndrome |
| NCT01750632 | Not specified | COMPLETED | Subcapsular Orchiectomy in Men With Klinefelter Syndrome |
| NCT01817296 | Not specified | COMPLETED | Klinefelter Fertility Preservation |
| NCT01918280 | Not specified | COMPLETED | Fertility Preservation in Cases of Klinefelter Syndrome. |
| NCT02414295 | Not specified | COMPLETED | Sperm Production in Kleinfelter Syndrome Patients After Mesenchymal Stem Cell Injection |
| NCT02430584 | Not specified | UNKNOWN | Whole Blood Specimen Collection From Pregnant Subjects |
| NCT02461303 | Not specified | TERMINATED | Fertility Assessment in Patients With Klinefelter Syndrome |
| NCT02526628 | Not specified | COMPLETED | Thrombosis and Neurocognition in Klinefelter Syndrome |
| NCT02723305 | Not specified | COMPLETED | Cardiometabolic Profiles of Boys With Klinefelter Syndrome |
| NCT02787486 | Not specified | COMPLETED | Expanded Noninvasive Genomic Medical Assessment: The Enigma Study |
| NCT02788136 | Not specified | COMPLETED | Human Chorionic Gonadotropin Stimulation Effects on Steroidogenesis in Men With Klinefelter Syndrome |
| NCT03396562 | Not specified | RECRUITING | The eXtroardinarY Babies Study: Natural History of Health and Neurodevelopment in Infants and Young Children With Sex Chromosome Trisomy |
| NCT03836300 | Not specified | ENROLLING_BY_INVITATION | Parent and Infant Inter(X)Action Intervention (PIXI) |
| NCT04252001 | Not specified | NOT_YET_RECRUITING | Growing up With the Young Endocrine Support System (YESS!) |
| NCT04803474 | Not specified | UNKNOWN | Turner And Klinefelter Treatment Target Study |
| NCT05014997 | Not specified | COMPLETED | TyG Index Levels in Klinefelter Syndrome |
| NCT05425953 | Not specified | UNKNOWN | Endocrine, Metabolic, Cardiovascular and Immunological Aspects of Sex Chromosome Abnormalities in Relation to Genotype |
| NCT05581147 | Not specified | RECRUITING | Thyroid Function and Structure in Klinefelter Syndrome |
| NCT05997706 | Not specified | UNKNOWN | Unraveling the Klinefelter’s Disease Physiopathology |
| NCT06687252 | Not specified | COMPLETED | Retrospective Analysis of the Neonatal Management of Patients with an Antenatal Diagnosis of Genital Development Variation At the Hospital of Lyon |
| NCT07142135 | Not specified | ENROLLING_BY_INVITATION | Long-term Systematic Follow-up of Patients With Klinefelter Syndrome Followed at the Department of Growth and Reproduction, Rigshospitalet |
Related Atlas pages
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): chondrodysplasia punctata, brachytelephalangic, autosomal, Klinefelter syndrome, X-linked chondrodysplasia punctata 1