AMELY
gene geneOn this page
Summary
AMELY (amelogenin Y-linked, HGNC:462) is a protein-coding gene on chromosome Yp11.2, encoding Amelogenin, Y isoform (Q99218). Plays a role in biomineralization.
This gene encodes a member of the amelogenin family of extracellular matrix proteins. Amelogenins are involved in biomineralization during tooth enamel development. Mutations in a related gene on chromosome X cause X-linked amelogenesis imperfecta.
Source: NCBI Gene 266 — RefSeq curated summary.
At a glance
- Clinical variants (ClinVar): 66 total — 42 pathogenic
- MANE Select transcript:
NM_001143 - Notable: 66 clinical variants but no curated precision-oncology (CIViC) evidence yet
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:462 |
| Approved symbol | AMELY |
| Name | amelogenin Y-linked |
| Location | Yp11.2 |
| Locus type | gene with protein product |
| Status | Approved |
| Ensembl gene | ENSG00000099721 |
| Ensembl biotype | protein_coding |
| OMIM | 410000 |
| Entrez | 266 |
Gene structure
Transcript identifiers
Ensembl transcripts: 2 — 2 protein_coding
MANE Select: ENST00000651267
Transcript support level (Ensembl TSL; 1 = fully mRNA-supported): TSL 5: 1
ENST00000651267, ENST00000383036
RefSeq mRNA: 2 — MANE Select: NM_001143
NM_001143, NM_001364814
CCDS: CCDS14778, CCDS94708
Canonical transcript exons
ENST00000651267 — 7 exons
| Exon | Start | End |
|---|---|---|
| ENSE00000652250 | 6868732 | 6868776 |
| ENSE00001494454 | 6865918 | 6866078 |
| ENSE00001645681 | 6870006 | 6870053 |
| ENSE00001667251 | 6868037 | 6868462 |
| ENSE00001671586 | 6872555 | 6872620 |
| ENSE00003842130 | 6873972 | 6874071 |
| ENSE00003845700 | 6911673 | 6911752 |
Expression profiles
Bgee: expression breadth broad, 20 present calls, max score 83.18.
Highest expression (Bgee): male germ line stem cell (sensu Vertebrata) in testis, primordial germ cell in gonad, triceps brachii, gluteal muscle, heart right ventricle.
Top tissues by expression
showing 100 of 250 tissues by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| male germ line stem cell (sensu Vertebrata) in testis | CL:0000089 ∩ UBERON:0000473 | 83.18 | gold quality |
| primordial germ cell in gonad | CL:0000670 ∩ UBERON:0000991 | 81.11 | gold quality |
| triceps brachii | UBERON:0001509 | 76.55 | gold quality |
| gluteal muscle | UBERON:0002000 | 76.24 | gold quality |
| heart right ventricle | UBERON:0002080 | 68.10 | gold quality |
| pancreatic ductal cell | CL:0002079 | 65.97 | silver quality |
| skeletal muscle tissue of biceps brachii | UBERON:0004502 | 63.82 | gold quality |
| orbitofrontal cortex | UBERON:0004167 | 61.13 | gold quality |
| Brodmann (1909) area 46 | UBERON:0006483 | 60.55 | gold quality |
| tibialis anterior | UBERON:0001385 | 60.20 | silver quality |
| biceps brachii | UBERON:0001507 | 59.83 | gold quality |
| nasal cavity epithelium | UBERON:0005384 | 58.74 | gold quality |
| deltoid | UBERON:0001476 | 58.06 | gold quality |
| inferior olivary complex | UBERON:0002127 | 57.34 | gold quality |
| endothelial cell | CL:0000115 | 56.87 | gold quality |
| decidua | UBERON:0002450 | 56.55 | gold quality |
| jejunal mucosa | UBERON:0000399 | 55.71 | gold quality |
| quadriceps femoris | UBERON:0001377 | 55.14 | gold quality |
| myocardium | UBERON:0002349 | 54.65 | gold quality |
| colonic mucosa | UBERON:0000317 | 54.18 | gold quality |
| vastus lateralis | UBERON:0001379 | 54.03 | gold quality |
| cranial nerve II | UBERON:0000941 | 53.18 | silver quality |
| mucosa of sigmoid colon | UBERON:0004993 | 53.00 | gold quality |
| ileal mucosa | UBERON:0000331 | 52.90 | silver quality |
| hair follicle | UBERON:0002073 | 52.43 | gold quality |
| epithelial cell of pancreas | CL:0000083 | 52.23 | gold quality |
| skeletal muscle tissue | UBERON:0001134 | 51.95 | gold quality |
| upper leg skin | UBERON:0004262 | 51.68 | silver quality |
| seminal vesicle | UBERON:0000998 | 51.65 | gold quality |
| muscle tissue | UBERON:0002385 | 50.83 | gold quality |
| corpus epididymis | UBERON:0004359 | 50.67 | gold quality |
| caput epididymis | UBERON:0004358 | 49.58 | gold quality |
| cauda epididymis | UBERON:0004360 | 49.56 | gold quality |
| sural nerve | UBERON:0015488 | 49.55 | silver quality |
| blood vessel layer | UBERON:0004797 | 49.29 | gold quality |
| cervix squamous epithelium | UBERON:0006922 | 49.20 | gold quality |
| pigmented layer of retina | UBERON:0001782 | 49.06 | gold quality |
| olfactory bulb | UBERON:0002264 | 48.92 | gold quality |
| choroid plexus epithelium | UBERON:0003911 | 48.89 | gold quality |
| type B pancreatic cell | CL:0000169 | 48.83 | gold quality |
| jejunum | UBERON:0002115 | 48.64 | gold quality |
| cardiac muscle of right atrium | UBERON:0003379 | 48.55 | gold quality |
| CA1 field of hippocampus | UBERON:0003881 | 48.50 | gold quality |
| mammalian vulva | UBERON:0000997 | 48.26 | gold quality |
| left ventricle myocardium | UBERON:0006566 | 48.24 | gold quality |
| upper arm skin | UBERON:0004263 | 48.06 | gold quality |
| cervix epithelium | UBERON:0004801 | 48.04 | gold quality |
| oviduct epithelium | UBERON:0004804 | 48.00 | gold quality |
| tongue squamous epithelium | UBERON:0006919 | 47.92 | gold quality |
| mucosa of urinary bladder | UBERON:0001259 | 47.80 | gold quality |
| thymus | UBERON:0002370 | 47.42 | gold quality |
| periodontal ligament | UBERON:0008266 | 47.14 | gold quality |
| diaphragm | UBERON:0001103 | 47.05 | gold quality |
| kidney epithelium | UBERON:0004819 | 47.02 | gold quality |
| renal glomerulus | UBERON:0000074 | 46.99 | gold quality |
| metanephric glomerulus | UBERON:0004736 | 46.96 | gold quality |
| nephron tubule | UBERON:0001231 | 46.88 | gold quality |
| layer of synovial tissue | UBERON:0007616 | 45.76 | gold quality |
| palpebral conjunctiva | UBERON:0001812 | 44.31 | gold quality |
| entorhinal cortex | UBERON:0002728 | 43.78 | gold quality |
| placenta | UBERON:0001987 | 43.66 | silver quality |
| epithelium of bronchus | UBERON:0002031 | 43.42 | gold quality |
| squamous epithelium | UBERON:0006914 | 43.42 | gold quality |
| skeletal muscle tissue of rectus abdominis | UBERON:0004511 | 43.37 | gold quality |
| bronchus | UBERON:0002185 | 43.28 | gold quality |
| cartilage tissue | UBERON:0002418 | 43.21 | gold quality |
| epithelium of esophagus | UBERON:0001976 | 42.87 | gold quality |
| secondary oocyte | CL:0000655 | 42.57 | gold quality |
| Brodmann (1909) area 23 | UBERON:0013554 | 42.02 | gold quality |
| superficial temporal artery | UBERON:0001614 | 41.33 | gold quality |
| epithelium of mammary gland | UBERON:0003244 | 41.33 | gold quality |
| parotid gland | UBERON:0001831 | 41.05 | gold quality |
| ventricular zone | UBERON:0003053 | 41.05 | gold quality |
| trachea | UBERON:0003126 | 41.02 | gold quality |
| mucosa of paranasal sinus | UBERON:0005030 | 40.98 | gold quality |
| tibia | UBERON:0000979 | 40.82 | gold quality |
| amniotic fluid | UBERON:0000173 | 40.69 | gold quality |
| dorsal plus ventral thalamus | UBERON:0001897 | 40.56 | gold quality |
| epithelium of nasopharynx | UBERON:0001951 | 40.45 | gold quality |
| gingival epithelium | UBERON:0001949 | 40.43 | gold quality |
| bronchial epithelial cell | CL:0002328 | 40.34 | gold quality |
| germinal epithelium of ovary | UBERON:0001304 | 40.33 | gold quality |
| oral cavity | UBERON:0000167 | 40.29 | gold quality |
| esophagus squamous epithelium | UBERON:0006920 | 40.29 | gold quality |
| tongue | UBERON:0001723 | 40.09 | gold quality |
| pleura | UBERON:0000977 | 40.03 | gold quality |
| mammary duct | UBERON:0001765 | 39.98 | gold quality |
| saphenous vein | UBERON:0007318 | 39.83 | gold quality |
| oocyte | CL:0000023 | 39.80 | gold quality |
| urethra | UBERON:0000057 | 39.80 | gold quality |
| pericardium | UBERON:0002407 | 39.77 | gold quality |
| male germ cell | CL:0000015 | 39.75 | gold quality |
| bone marrow cell | CL:0002092 | 39.74 | gold quality |
| nasal cavity mucosa | UBERON:0001826 | 39.71 | gold quality |
| synovial joint | UBERON:0002217 | 39.70 | gold quality |
| dorsal root ganglion | UBERON:0000044 | 39.68 | gold quality |
| nipple | UBERON:0002030 | 39.68 | gold quality |
| penis | UBERON:0000989 | 39.64 | gold quality |
| gingiva | UBERON:0001828 | 39.64 | gold quality |
| trigeminal ganglion | UBERON:0001675 | 39.63 | gold quality |
Single-cell (SCXA)
Detected in 1 experiment(s), a significant marker in 0.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-ANND-3 | no | 0.35 |
HPA expression
RNA tissue specificity: Not detected
30 HPA tissues / cells by nTPM:
| Tissue / cell | Axis | nTPM |
|---|---|---|
| Amygdala | tissue | 2.2 |
| Periaqueductal gray | tissue | 1.8 |
| Septum | tissue | 1.7 |
| Hypothalamus | tissue | 1.5 |
| Substantia nigra | tissue | 1.4 |
| Ventral pallidum | tissue | 1.3 |
| Thalamus | tissue | 1.1 |
| Olfactory bulb | tissue | 1.1 |
| Basal ganglia | tissue | 1.0 |
| Spinal cord | tissue | 1.0 |
| Corpus callosum | tissue | 1.0 |
| Putamen | tissue | 0.9 |
| Midbrain | tissue | 0.9 |
| Hippocampal formation | tissue | 0.9 |
| Medulla oblongata | tissue | 0.8 |
| Prefrontal cortex | tissue | 0.7 |
| Cerebral cortex | tissue | 0.7 |
| Pons | tissue | 0.7 |
| Motor cortex | tissue | 0.6 |
| Entorhinal cortex | tissue | 0.6 |
| Temporal cortex | tissue | 0.6 |
| Insular cortex | tissue | 0.6 |
| Cingulate cortex | tissue | 0.4 |
| Somatosensory cortex | tissue | 0.4 |
| Retrosplenial cortex | tissue | 0.4 |
| Superior colliculi | tissue | 0.3 |
| Cerebellum | tissue | 0.1 |
| Thyroid gland | tissue | 0.1 |
| Prostate | tissue | 0.1 |
| Occipital cortex | tissue | 0.1 |
Brain sub-regions (HPA Brain Atlas): detected in 8; highest nTPM — Ventral spinal cord (1.0), White matter (1.0), Dorsal spinal cord (0.9), Ventral hippocampus (0.9), Subiculum (0.8).
Regulation
Is transcription factor: no
Upstream regulators (CollecTRI, top): CEBPA, YY1
miRNA regulators (miRDB)
Targeting AMELY by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific).
16 miRNAs:
| miRNA | Max score | Avg score | miRNA target_count |
|---|---|---|---|
| HSA-MIR-548P | 99.98 | 72.25 | 3784 |
| HSA-MIR-10527-5P | 99.91 | 72.28 | 3754 |
| HSA-MIR-345-3P | 99.89 | 70.23 | 1421 |
| HSA-MIR-153-5P | 99.89 | 73.86 | 6317 |
| HSA-MIR-4639-5P | 99.81 | 67.37 | 1028 |
| HSA-MIR-636 | 99.80 | 69.58 | 1500 |
| HSA-MIR-4319 | 99.76 | 69.83 | 2586 |
| HSA-MIR-3618 | 99.69 | 68.57 | 1012 |
| HSA-MIR-670-5P | 99.67 | 69.94 | 1565 |
| HSA-MIR-150-3P | 99.43 | 70.51 | 920 |
| HSA-MIR-584-3P | 99.35 | 67.69 | 1082 |
| HSA-MIR-5701 | 98.97 | 69.54 | 1502 |
| HSA-MIR-508-3P | 98.66 | 69.62 | 887 |
| HSA-MIR-934 | 98.49 | 70.44 | 581 |
| HSA-MIR-4421 | 97.99 | 64.89 | 701 |
| HSA-MIR-5699-3P | 97.81 | 65.00 | 861 |
Functional genomics
Regional missense constraint (gnomAD RMC): no regional variation along ENST00000651267 — one region, missense o/e 0.77.
Literature-anchored findings (GeneRIF, showing 7)
- Multigene deletions encompassing AMELY on short arm of chromosome Y. (PMID:17189292)
- The combined frequency of the AMELY null allele in Singapore and Malaysia populations is 2.7%, 0.6% in Indian and Malay ethnic groups respectively. It is absent among 541 Chinese screened. (PMID:17588179)
- Results of haplogroup prediction showed that seven AMELY dropouts combined with variant Y-STR deletions can be classified as the J2 subdivision, suggesting that some of these Y chromosomes might descend from a common ancestor. (PMID:22669323)
- 252 confirmed and unrelated father/son pairs from the Moroccan population were examined using 17 Y-STR markers of the AmpFISTR Yfiler kit. A total of 15 single repeat mutations between fathers and sons were observed as mutational events. (PMID:23623014)
- demonstrate the presence of copy number variations in regions containing 9 of the 13 CODIS(Combined DNA Index System) short tandem repeat(STR) and AMELX/Y loci (PMID:23948316)
- Finally, since these results are almost completely in accordance with previously published data on B&H and neighboring populations generated by Y-chromosome single nucleotide polymorphism analysis, it can be concluded that in silico analysis of Y-STRs is a reliable method for approximation of the Y-chromosome haplogroup diversity of an examined population. (PMID:28828942)
- Optimization of Method for Human Sex Determination Using Peptidome Analysis of Teeth Enamel from Teeth of Different Biological Generation, Archeological Age, and Degrees of Taphonomic Preservation. (PMID:32571191)
Cross-species orthologs
0 orthologs
Paralogs (1): AMELX (ENSG00000125363)
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.
| Organism | UniProt | Identity | Method |
|---|---|---|---|
| Mus musculus | P63277 | 100.0% | Diamond |
| Rattus norvegicus | P63278 | 100.0% | Diamond |
| Oryctolagus cuniculus | P12761 | 94.4% | Diamond |
| Ornithorhynchus anatinus | O97646 | 90.9% | Diamond |
| Tachyglossus aculeatus aculeatus | O97647 | 90.9% | Diamond |
| Bos taurus | P02817 | 89.7% | Diamond |
| Monodelphis domestica | Q28462 | 89.7% | Diamond |
| Pan troglodytes | Q861X8 | 86.7% | Diamond |
| Sus scrofa | P45561 | 86.2% | Diamond |
| Cavia porcellus | Q9Z0K9 | 78.3% | 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).
| Symbol | Type | Entrez |
|---|---|---|
| TBL1Y | protein-coding | 90665 |
| TTTY8B | ncRNA | 100101118 |
Protein
Protein identifiers
Amelogenin, Y isoform — Q99218 (reviewed: Q99218)
All UniProt accessions (1): Q99218
UniProt curated annotations — full annotation on UniProt →
Function. Plays a role in biomineralization. Seems to regulate the formation of crystallites during the secretory stage of tooth enamel development. Thought to play a major role in the structural organization and mineralization of developing enamel.
Subcellular location. Secreted. Extracellular space. Extracellular matrix.
Similarity. Belongs to the amelogenin family.
Isoforms (2)
| UniProt ID | Names | Canonical? |
|---|---|---|
| Q99218-2 | 2 | yes |
| Q99218-1 | 1 |
RefSeq proteins (2): NP_001134, NP_001351743 (=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR004116 | Amelogenin | Family |
Pfam: PF02948
UniProt features (8 total): compositionally biased region 2, sequence conflict 2, signal peptide 1, chain 1, region of interest 1, splice variant 1
Structure
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-Q99218-F1 | 57.18 | 0.00 |
Human Protein Atlas
Protein class: Predicted secreted proteins
Protein evidence: Evidence at protein level
Function
Pathways and Gene Ontology
Reactome pathways
0 curated (TAS) of 0; 0 disease pathways. Curated-first; evidence = TAS (manually curated) vs IEA (electronic inference).
MSigDB gene sets: 60 (showing top):
GOBP_TOOTH_MINERALIZATION, GOBP_ANIMAL_ORGAN_MORPHOGENESIS, GOBP_ENAMEL_MINERALIZATION, GOMF_EXTRACELLULAR_MATRIX_STRUCTURAL_CONSTITUENT, TGCTGAY_UNKNOWN, GOBP_AMELOGENESIS, MODULE_88, MODULE_113, GOBP_ODONTOGENESIS_OF_DENTIN_CONTAINING_TOOTH, MODULE_400, PITX2_Q2, MODULE_112, MCCABE_HOXC6_TARGETS_UP, GOBP_ODONTOGENESIS, MODULE_55
GO Biological Process (3): enamel mineralization (GO:0070166), multicellular organism development (GO:0007275), biomineral tissue development (GO:0031214)
GO Molecular Function (2): structural constituent of tooth enamel (GO:0030345), protein binding (GO:0005515)
GO Cellular Component (1): extracellular matrix (GO:0031012)
GO top-level categories
9 GO namespaces:
| Category | Terms |
|---|---|
| tooth mineralization | 1 |
| amelogenesis | 1 |
| multicellular organismal process | 1 |
| anatomical structure development | 1 |
| tissue development | 1 |
| animal organ development | 1 |
| extracellular matrix structural constituent conferring compression resistance | 1 |
| binding | 1 |
| external encapsulating structure | 1 |
Experimentally-supported GO annotations
GO terms backed by direct experimental evidence (ECO experimental codes) — 1 of 6 annotations. The rest are phylogenetic / computational / electronic (IEA).
1 experimentally-supported GO terms:
| GO term | NS | Evidence |
|---|---|---|
| structural constituent of tooth enamel | MF | direct assay |
Protein interactions and networks
STRING
showing 15 of 490 interactions by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| AMELY | TSPY1 | P09002 | 968 |
| AMELY | O15348 | O15348 | 965 |
| AMELY | TBL1Y | Q9BQ87 | 938 |
| AMELY | A0A087WUC5 | A0A087WUC5 | 937 |
| AMELY | PRKX | P51817 | 846 |
| AMELY | PCDH11X | Q9BZA7 | 846 |
| AMELY | OSTC | Q9NRP0 | 758 |
| AMELY | ZFY | P08048 | 741 |
| AMELY | SRY | Q05066 | 732 |
| AMELY | ENAM | Q9NRM1 | 671 |
| AMELY | USP9Y | O00507 | 654 |
| AMELY | UTY | O14607 | 630 |
| AMELY | TMSB4Y | O14604 | 573 |
| AMELY | RPS4Y1 | P22090 | 572 |
| AMELY | DDX3Y | O15523 | 571 |
IntAct
BioGRID (1 interactions; top human partners by supporting records): HIBADH (Two-hybrid)
Disease & clinical
Genetic variants
Variant evidence for AMELY: 66 ClinVar records (42 pathogenic / likely pathogenic). Per-variant detail is on Sugi Variant.
ClinVar
66 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 42 |
| Likely pathogenic | 0 |
| Uncertain significance | 9 |
| Likely benign | 12 |
| Benign | 0 |
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 ID | HGVS | Classification | Review | Submitters |
|---|---|---|---|---|
| 57173 | GRCh38/hg38 Yp11.2-q11.223(chrY:2788370-20525326)x2 | Pathogenic | criteria provided, single submitter | 1 |
| 57270 | GRCh38/hg38 Yp11.2-q11.223(chrY:2786811-22358529)x2 | Pathogenic | criteria provided, single submitter | 1 |
| 57321 | GRCh38/hg38 Yp11.2(chrY:2786811-9007152)x2 | Pathogenic | criteria provided, single submitter | 1 |
| 58764 | GRCh38/hg38 Yp11.2-q12(chrY:2783624-26637948)x2 | Pathogenic | criteria provided, single submitter | 1 |
| 58793 | GRCh38/hg38 Yp11.2-q11.221(chrY:2783624-13011793)x2 | Pathogenic | criteria provided, single submitter | 1 |
| 58798 | GRCh38/hg38 Yp11.2-q11.23(chrY:2786811-26463830)x2 | Pathogenic | criteria provided, single submitter | 1 |
| 58799 | GRCh38/hg38 Yp11.2-q11.23(chrY:2786811-26483746)x2 | Pathogenic | criteria provided, single submitter | 1 |
| 60442 | GRCh38/hg38 Yp11.2-q11.223(chrY:2787210-22302412)x2 | Pathogenic | criteria provided, single submitter | 1 |
| 60444 | GRCh38/hg38 Yp11.2-q11.23(chrY:6478684-26574618)x2 | Pathogenic | criteria provided, single submitter | 1 |
| 253428 | GRCh37/hg19 Yp11.32-q12(chrY:20297-59358845)x2 | Pathogenic | criteria provided, single submitter | 1 |
| 253481 | GRCh37/hg19 Yp11.32-q12(chrY:126426-59349649)x2 | Pathogenic | criteria provided, single submitter | 1 |
| 253518 | GRCh37/hg19 Yp11.32-q12(chrY:21267-59349649)x2 | Pathogenic | criteria provided, single submitter | 1 |
| 253542 | GRCh37/hg19 Yp11.32-q12(chrY:21267-59337042)x2 | Pathogenic | criteria provided, single submitter | 1 |
| 253556 | GRCh37/hg19 Yp11.32-q11.221(chrY:100002-15906224)x2 | Pathogenic | criteria provided, single submitter | 1 |
| 253609 | GRCh37/hg19 Yp11.32-q12(chrY:126426-59353228)x2 | Pathogenic | criteria provided, single submitter | 1 |
Per-variant reference — Sugi Variant
Explore AMELY’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; 25 predictions of 672):
| Position(s) | Effect | Δscore | Sites |
|---|---|---|---|
| Y:6870057 | acceptor_gain | 0.9900 | |
| Y:6874091 | acceptor_gain | 0.9900 | |
| Y:6870055 | acceptor_gain | 0.9700 | |
| Y:6870059 | acceptor_gain | 0.9600 | |
| Y:6872550 | donor_loss | 0.9600 | 2 |
| Y:6872553–6872554 | donor_loss | 0.9600 | 5 |
| Y:6872550–6872553 | donor_loss | 0.9500 | 3 |
| Y:6868035–6868036 | donor_loss | 0.9300 | 5 |
| Y:6870054–6870055 | acceptor_loss | 0.9300 | 5 |
| Y:6872549 | donor_loss | 0.9300 |
HPA cancer prognostics
RNA cancer specificity: Not detected
Disease associations
OMIM: gene MIM:410000 | disease phenotypes:
Drugs & pharmacology
Drug and pharmacology data
Is drug target: no
PharmGKB: 1 entry (CPIC guideline: no)
CTD chemical–gene interactions
4 total (human), top 4 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| arsenite | decreases methylation | 1 |
| CGP 52608 | increases reaction, affects binding | 1 |
| Benzo(a)pyrene | affects methylation | 1 |
| Lactic Acid | decreases expression | 1 |
Clinical trials (associated diseases)
Via MONDO — disease-level, not drug-specific.
showing 60 of 169 trials:
| NCT | Phase | Status | Title |
|---|---|---|---|
| NCT02408445 | Phase 4 | COMPLETED | Body Composition in Infants With Klinefelter Syndrome and Effects of Testosterone Treatment |
| NCT03325647 | Phase 4 | COMPLETED | TESTO: Testosterone Effects on Short-Term Outcomes in Infants With XXY |
| NCT05498090 | Phase 4 | UNKNOWN | Interrogating Fatty Acid Metabolism Impairment and Clinical Correlates in Males with Klinefelter Syndrome |
| NCT06294990 | Phase 4 | RECRUITING | Klinefelter Syndrome and Testosterone Treatment in Puberty |
| NCT02202382 | Phase 4 | COMPLETED | Effects of Korean Red Ginseng on Male Infertility |
| NCT02204826 | Phase 4 | COMPLETED | Effects of Korean Red Ginseng on Semen Parameters in Male Infertility Patients: a Randomized, Placebo-controlled, Double-blind Clinical Study |
| NCT03802864 | Phase 4 | COMPLETED | Post-operative Pain Control of Testicular Sperm Extraction Using Liposomal Bupivacaine |
| NCT06100432 | Phase 4 | ACTIVE_NOT_RECRUITING | Effect of Eurycoma Longifolia (DLBS5055) and Multivitamins (Vitamin C+Vitamin E+ β-carotene) for Infertile Males |
| NCT07523022 | Phase 4 | ENROLLING_BY_INVITATION | Comparison of the Effect of Gonadotropin and Clomiphene Citrate Treatment on Sperm Parameters and the Outcome of Assisted Reproductive Procedures in Subfertile Men Based on the APHRODITE Groups |
| NCT05586802 | Phase 3 | RECRUITING | Sex Steroids Balance for Metabolic and Reproductive Health in Klinefelter Syndrome |
| NCT00975117 | Phase 3 | COMPLETED | Spermotrend in the Treatment of Male Infertility |
| NCT01407432 | Phase 3 | COMPLETED | Impact of Folates in the Care of the Male Infertility |
| NCT01895816 | Phase 3 | COMPLETED | Herbal Tonic Fertile Supplement(ZO2C5) |
| NCT02605070 | Phase 3 | TERMINATED | Pilot Study on the Effects of FSH Treatment on the Epigenetic Characteristics of Spermatozoa in Infertile Patients With Severe Oligozoospermia |
| NCT07402759 | Phase 3 | ACTIVE_NOT_RECRUITING | Impact of tdrd9 Gene Mutations in the Therapeutic Response to L-carnitine in Oligoasthenozoospermic Men |
| NCT00348946 | Phase 2 | COMPLETED | Androgen Effect on Klinefelter Syndrome Motor Outcome |
| NCT02061384 | Phase 2 | COMPLETED | RA-2 13-cis Retinoic Acid (Isotretinoin) |
| NCT01880086 | Phase 2 | COMPLETED | Clomiphene Citrate for the Treatment of Low Testosterone Associated With Chronic Opioid Pain Medication Administration |
| NCT02421887 | Phase 2 | COMPLETED | Males, Antioxidants, and Infertility Trial |
| NCT05200663 | Phase 2 | UNKNOWN | Efficacy Comparison of Tamoxifen and Tamoxifen With Antioxidants on Semen Quality of Male With Idiopathic Infertility |
| NCT05290558 | Phase 2 | ACTIVE_NOT_RECRUITING | The Therapeutic Effects of Bu Shen Yi Jing Pill on Semen Quality in Sub Fertile Males: a Randomized Controlled Trial |
| NCT06091969 | Phase 2 | NOT_YET_RECRUITING | Supplementation for Male Subfertility |
| NCT01595308 | Phase 1 | COMPLETED | A Pilot Study to Evaluate the Effect of Pomegranate Juice on Semen Parameters in Healthy Male Volunteers |
| NCT02122211 | Phase 1 | COMPLETED | Choline Dehydrogenase and Sperm Function: Effects of Betaine |
| NCT02575924 | Phase 1 | UNKNOWN | Influence of Culture Media on Clinical Outcomes in Poor Responders or Severe Male Infertility |
| NCT01206270 | Phase 2/3 | 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 |
| NCT07807540 | Not specified | NOT_YET_RECRUITING | Hematological Profile in Children With Numerical Chromosomal Disorders |
| NCT01304927 | Phase 2/3 | COMPLETED | Vitamin D Supplementation and Male Infertility: The CBG-study a Randomized Clinical Trial |
| NCT02349945 | Phase 2/3 | COMPLETED | FSH Receptor Polymorphism p.N680S and Efficacy of FSH Therapy |
| NCT05222841 | Phase 2/3 | COMPLETED | The Effectiveness of Spermotrend Food Supplement in the Treatment of Male Infertility |
| NCT05616598 | Phase 2/3 | COMPLETED | Effect of New Oral Treatment for Hepatitis C Virus on Seminal Parameters |
| NCT07669402 | Phase 2/3 | COMPLETED | Comparative Evaluation of the Efficacy of Letrozole, L-Carnitine, and Their Combination on Sperm Quality, Oxidative Stress, and ART Outcomes in Men With Idiopathic Oligoasthenoteratozoospermia. |
Related Atlas pages
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): Klinefelter syndrome