B3GNT5
geneOn this page
Also known as B3GN-T5beta3Gn-T5
Summary
B3GNT5 (UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 5, HGNC:15684) is a protein-coding gene on chromosome 3q27.1, encoding Lactosylceramide 1,3-N-acetyl-beta-D-glucosaminyltransferase (Q9BYG0). Beta-1,3-N-acetylglucosaminyltransferase that plays a key role in the synthesis of lacto- or neolacto-series carbohydrate chains on glycolipids, notably by participating in biosynthesis of HNK-1 and Lewis X carbohydrate structures.
This gene encodes a member of the beta-1,3-N-acetylglucosaminyltransferase family. This enzyme is a type II membrane protein. It exhibits strong activity to transfer GlcNAc to glycolipid substrates and is identified as the most likely candidate for lactotriaosylceramide synthase. This enzyme is essential for the expression of Lewis X epitopes on glycolipids.
Source: NCBI Gene 84002 — RefSeq curated summary.
At a glance
- Clinical variants (ClinVar): 48 total
- MANE Select transcript:
NM_032047
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:15684 |
| Approved symbol | B3GNT5 |
| Name | UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 5 |
| Location | 3q27.1 |
| Locus type | gene with protein product |
| Status | Approved |
| Aliases | B3GN-T5, beta3Gn-T5 |
| Ensembl gene | ENSG00000176597 |
| Ensembl biotype | protein_coding |
| OMIM | 615333 |
| Entrez | 84002 |
Gene structure
Transcript identifiers
Ensembl transcripts: 26 — 20 protein_coding, 6 protein_coding_CDS_not_defined
ENST00000326505, ENST00000460419, ENST00000462559, ENST00000464191, ENST00000464923, ENST00000465010, ENST00000477699, ENST00000480551, ENST00000481531, ENST00000488301, ENST00000493370, ENST00000496270, ENST00000877397, ENST00000877398, ENST00000877399, ENST00000877400, ENST00000877401, ENST00000877402, ENST00000877403, ENST00000877404, ENST00000877405, ENST00000877406, ENST00000957215, ENST00000957216, ENST00000957217, ENST00000957218
RefSeq mRNA: 1 — MANE Select: NM_032047
NM_032047
CCDS: CCDS3244
Canonical transcript exons
ENST00000326505 — 2 exons
| Exon | Start | End |
|---|---|---|
| ENSE00001230142 | 183253253 | 183253472 |
| ENSE00001388754 | 183269498 | 183273385 |
Expression profiles
Bgee: expression breadth ubiquitous, 240 present calls, max score 98.36.
FANTOM5 (CAGE): breadth ubiquitous, TPM avg 17.0707 / max 1066.3939, expressed in 1447 samples.
FANTOM5 promoters (22 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 40066 | 4.3497 | 691 |
| 40065 | 3.4165 | 889 |
| 40068 | 1.2046 | 168 |
| 40075 | 1.0296 | 611 |
| 40090 | 0.9625 | 394 |
| 40076 | 0.9531 | 511 |
| 40064 | 0.9501 | 471 |
| 40070 | 0.7990 | 159 |
| 40091 | 0.6297 | 218 |
| 40089 | 0.6058 | 230 |
Top tissues by expression
252 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| ileal mucosa | UBERON:0000331 | 98.36 | gold quality |
| bronchial epithelial cell | CL:0002328 | 98.29 | gold quality |
| jejunal mucosa | UBERON:0000399 | 98.20 | gold quality |
| bronchus | UBERON:0002185 | 97.63 | gold quality |
| mucosa of sigmoid colon | UBERON:0004993 | 96.58 | gold quality |
| colonic mucosa | UBERON:0000317 | 96.16 | gold quality |
| upper leg skin | UBERON:0004262 | 95.72 | gold quality |
| mucosa of paranasal sinus | UBERON:0005030 | 95.65 | gold quality |
| oral cavity | UBERON:0000167 | 95.25 | gold quality |
| cartilage tissue | UBERON:0002418 | 94.66 | gold quality |
| duodenum | UBERON:0002114 | 94.57 | gold quality |
| olfactory segment of nasal mucosa | UBERON:0005386 | 94.16 | gold quality |
| nasal cavity epithelium | UBERON:0005384 | 94.05 | gold quality |
| epithelium of nasopharynx | UBERON:0001951 | 93.88 | gold quality |
| esophagus squamous epithelium | UBERON:0006920 | 93.84 | gold quality |
| epithelial cell of pancreas | CL:0000083 | 93.80 | gold quality |
| gingival epithelium | UBERON:0001949 | 93.37 | gold quality |
| gingiva | UBERON:0001828 | 93.32 | gold quality |
| sperm | CL:0000019 | 93.22 | gold quality |
| oviduct epithelium | UBERON:0004804 | 92.97 | gold quality |
| nasal cavity mucosa | UBERON:0001826 | 91.53 | gold quality |
| visceral pleura | UBERON:0002401 | 91.46 | gold quality |
| buccal mucosa cell | CL:0002336 | 91.30 | gold quality |
| pharyngeal mucosa | UBERON:0000355 | 91.08 | gold quality |
| hindlimb stylopod muscle | UBERON:0004252 | 90.66 | gold quality |
| esophagus mucosa | UBERON:0002469 | 90.35 | gold quality |
| rectum | UBERON:0001052 | 90.10 | gold quality |
| lower lobe of lung | UBERON:0008949 | 89.99 | gold quality |
| bone marrow | UBERON:0002371 | 89.49 | gold quality |
| gastrocnemius | UBERON:0001388 | 89.36 | gold quality |
Single-cell (SCXA)
Detected in 1 experiment(s), a significant marker in 1.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-ANND-3 | no | 0.00 |
Regulation
Is transcription factor: no
miRNA regulators (miRDB)
180 targeting B3GNT5, 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-30A-5P | 100.00 | 76.31 | 3233 |
| HSA-MIR-30B-5P | 100.00 | 76.29 | 3248 |
| HSA-MIR-30C-5P | 100.00 | 76.29 | 3248 |
| HSA-MIR-30D-5P | 100.00 | 76.32 | 3233 |
| HSA-MIR-30E-5P | 100.00 | 76.32 | 3242 |
| HSA-MIR-3163 | 100.00 | 77.23 | 8605 |
| HSA-MIR-29A-3P | 100.00 | 73.11 | 1835 |
| HSA-MIR-29B-3P | 100.00 | 73.18 | 1833 |
| HSA-MIR-29C-3P | 100.00 | 73.15 | 1833 |
| HSA-MIR-4776-3P | 100.00 | 68.73 | 1340 |
| HSA-MIR-4262 | 100.00 | 73.26 | 3931 |
| HSA-MIR-4668-3P | 100.00 | 68.74 | 2635 |
| HSA-MIR-340-5P | 100.00 | 72.50 | 4437 |
| HSA-MIR-4282 | 99.99 | 75.36 | 6408 |
| HSA-MIR-548C-3P | 99.99 | 74.01 | 7587 |
| HSA-MIR-548AW | 99.99 | 72.57 | 3559 |
| HSA-MIR-181A-5P | 99.99 | 72.96 | 2995 |
| HSA-MIR-181B-5P | 99.99 | 72.97 | 2996 |
| HSA-MIR-181C-5P | 99.99 | 72.95 | 2996 |
| HSA-MIR-181D-5P | 99.99 | 73.04 | 2997 |
| HSA-MIR-548P | 99.98 | 72.25 | 3784 |
| HSA-MIR-5696 | 99.98 | 72.36 | 4487 |
| HSA-MIR-4775 | 99.98 | 75.00 | 6394 |
| HSA-MIR-12136 | 99.98 | 72.81 | 5713 |
| HSA-MIR-302C-5P | 99.97 | 72.56 | 3642 |
| HSA-MIR-3688-3P | 99.97 | 72.02 | 2834 |
| HSA-MIR-3148 | 99.97 | 75.06 | 6478 |
| HSA-MIR-607 | 99.97 | 73.62 | 5593 |
| HSA-MIR-6793-5P | 99.97 | 65.95 | 758 |
| HSA-MIR-548AN | 99.97 | 70.91 | 2817 |
Literature-anchored findings (GeneRIF, showing 3)
- Helicobacter pylori induces beta3GnT5 in human gastric cell lines, modulating expression of the SabA ligand sialyl-Lewis x (PMID:18483624)
- bone marrow samples of acute myeloid leukemia patients had 16-fold higher expression of B3GNT5 than those of healthy donors (PMID:22411838)
- B3GNT5 is a novel marker correlated with stem-like phenotype and poor clinical outcome in human gliomas. (PMID:32677340)
Cross-species orthologs
8 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | b3gnt5b | ENSDARG00000004396 |
| danio_rerio | b3gnt5a | ENSDARG00000018971 |
| mus_musculus | B3gnt5 | ENSMUSG00000022686 |
| rattus_norvegicus | B3gnt5 | ENSRNOG00000046258 |
| drosophila_melanogaster | brn | FBGN0000221 |
| caenorhabditis_elegans | WBGENE00000270 | |
| caenorhabditis_elegans | WBGENE00007096 | |
| caenorhabditis_elegans | WBGENE00017653 |
Paralogs (15): B3GNT7 (ENSG00000156966), B3GALT2 (ENSG00000162630), B3GALNT2 (ENSG00000162885), B3GALNT1 (ENSG00000169255), B3GNT2 (ENSG00000170340), B3GALT1 (ENSG00000172318), B3GALT6 (ENSG00000176022), B3GNT4 (ENSG00000176383), B3GNT8 (ENSG00000177191), B3GNT3 (ENSG00000179913), B3GALT5 (ENSG00000183778), B3GNT6 (ENSG00000198488), B3GALT9 (ENSG00000214654), B3GALT4 (ENSG00000235863), B3GNT9 (ENSG00000237172)
Protein
Protein identifiers
Lactosylceramide 1,3-N-acetyl-beta-D-glucosaminyltransferase — Q9BYG0 (reviewed: Q9BYG0)
Alternative names: Lactotriaosylceramide synthase, UDP-GlcNAc:beta-Gal beta-1,3-N-acetylglucosaminyltransferase 5
All UniProt accessions (4): Q9BYG0, C9IYY0, C9J368, C9J5K2
UniProt curated annotations — full annotation on UniProt →
Function. Beta-1,3-N-acetylglucosaminyltransferase that plays a key role in the synthesis of lacto- or neolacto-series carbohydrate chains on glycolipids, notably by participating in biosynthesis of HNK-1 and Lewis X carbohydrate structures. Has strong activity toward lactosylceramide (LacCer) and neolactotetraosylceramide (nLc(4)Cer; paragloboside), resulting in the synthesis of Lc(3)Cer and neolactopentaosylceramide (nLc(5)Cer), respectively. Probably plays a central role in regulating neolacto-series glycolipid synthesis during embryonic development.
Subcellular location. Golgi apparatus membrane.
Tissue specificity. Widely expressed. Highly expressed in lung, colon, placenta, testis, pituitary gland and cerebellum. Weakly expressed in brain, liver, spleen, lymph node and thymus.
Induction. Up-regulated by stimulation with retinoic acid and down-regulated with 12-O-tetradecanoylphorbol-13-acetate (TPA).
Pathway. Protein modification; protein glycosylation.
Similarity. Belongs to the glycosyltransferase 31 family.
RefSeq proteins (1): NP_114436* (*=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR002659 | Glyco_trans_31 | Family |
Pfam: PF01762
Enzyme classification (BRENDA):
- EC 2.4.1.206 — lactosylceramide 1,3-N-acetyl-beta-D-glucosaminyltransferase (BRENDA: 6 organisms, 23 substrates, 1 inhibitors, 3 Km, 0 kcat entries)
Substrate kinetics (BRENDA)
3 substrates with measured Km, best-characterized 3. Km ranges are aggregated across organisms/conditions.
| Substrate | Km (mM) | Measurements |
|---|---|---|
| D-GALACTOSYL-1,4-BETA-D-GLUCOSYLCERAMIDE | 0.021 | 1 |
| D-GALACTOSYL-1,4-BETA-N-ACETYL-D-GLUCOSAMINYL-1, | 0.035 | 1 |
| GALBETA(1->4)GLCNACBETA1->2(GALBETA1->4GLCNACBET | 0.42 | 1 |
Catalyzed reactions (Rhea), 2 shown:
- a beta-D-Gal-(1->4)-beta-D-Glc-(1<->1)-Cer(d18:1(4E)) + UDP-N-acetyl-alpha-D-glucosamine = a beta-D-GlcNAc-(1->3)-beta-D-Gal-(1->4)-beta-D-Glc-(1<->1)-Cer(d18:1(4E)) + UDP + H(+) (RHEA:13905)
- a neolactoside nLc4Cer(d18:1(4E)) + UDP-N-acetyl-alpha-D-glucosamine = a neolactoside IV(3)-beta-GlcNAc-nLc4Cer(d18:1(4E)) + UDP + H(+) (RHEA:23004)
UniProt features (5 total): topological domain 2, chain 1, transmembrane region 1, glycosylation site 1
Structure
Experimental structures (PDB)
0 structures.
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-Q9BYG0-F1 | 90.89 | 0.75 |
Functional residue map
Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.
Glycosylation sites (1): 59
Function
Pathways and Gene Ontology
Reactome pathways
9 pathways
| ID | Pathway |
|---|---|
| R-HSA-913709 | O-linked glycosylation of mucins |
| R-HSA-9840309 | Glycosphingolipid biosynthesis |
| R-HSA-1430728 | Metabolism |
| R-HSA-1660662 | Glycosphingolipid metabolism |
| R-HSA-392499 | Metabolism of proteins |
| R-HSA-428157 | Sphingolipid metabolism |
| R-HSA-5173105 | O-linked glycosylation |
| R-HSA-556833 | Metabolism of lipids |
| R-HSA-597592 | Post-translational protein modification |
MSigDB gene sets: 297 (showing top):
GSE45365_CD8A_DC_VS_CD11B_DC_IFNAR_KO_UP, GARGALOVIC_RESPONSE_TO_OXIDIZED_PHOSPHOLIPIDS_YELLOW_DN, GOBP_GLYCOLIPID_BIOSYNTHETIC_PROCESS, MODULE_511, GOBP_CARBOHYDRATE_DERIVATIVE_METABOLIC_PROCESS, ATGTTAA_MIR302C, BILD_HRAS_ONCOGENIC_SIGNATURE, GOBP_SPHINGOLIPID_METABOLIC_PROCESS, AML_Q6, GOBP_CARBOHYDRATE_DERIVATIVE_BIOSYNTHETIC_PROCESS, GOBP_GLYCOSPHINGOLIPID_BIOSYNTHETIC_PROCESS, LIAO_METASTASIS, GOBP_LIPID_METABOLIC_PROCESS, GOBP_LIPID_BIOSYNTHETIC_PROCESS, CHARAFE_BREAST_CANCER_LUMINAL_VS_BASAL_DN
GO Biological Process (10): protein O-linked glycosylation (GO:0006493), glycosphingolipid biosynthetic process (GO:0006688), central nervous system development (GO:0007417), glycoprotein biosynthetic process (GO:0009101), glycolipid biosynthetic process (GO:0009247), obsolete protein glycosylation (GO:0006486), lipid metabolic process (GO:0006629), protein O-linked glycosylation via N-acetylgalactosamine (GO:0016266), sphingolipid biosynthetic process (GO:0030148), carbohydrate derivative biosynthetic process (GO:1901137)
GO Molecular Function (6): glycosyltransferase activity (GO:0016757), lactosylceramide 1,3-N-acetyl-beta-D-glucosaminyltransferase activity (GO:0047256), protein binding (GO:0005515), N-acetyl-beta-D-glucosaminide beta-(1,3)-galactosyltransferase activity (GO:0008499), transferase activity (GO:0016740), hexosyltransferase activity (GO:0016758)
GO Cellular Component (3): Golgi membrane (GO:0000139), Golgi apparatus (GO:0005794), membrane (GO:0016020)
Reactome top-level categories
Rollup of top-7 pathways:
| Category | Pathways |
|---|---|
| O-linked glycosylation | 1 |
| Glycosphingolipid metabolism | 1 |
| Sphingolipid metabolism | 1 |
| Metabolism of lipids | 1 |
| Post-translational protein modification | 1 |
| Metabolism | 1 |
| Metabolism of proteins | 1 |
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| carbohydrate derivative biosynthetic process | 2 |
| lipid biosynthetic process | 2 |
| glycoprotein biosynthetic process | 1 |
| glycosphingolipid metabolic process | 1 |
| glycolipid biosynthetic process | 1 |
| sphingolipid biosynthetic process | 1 |
| nervous system development | 1 |
| system development | 1 |
| macromolecule biosynthetic process | 1 |
| glycoprotein metabolic process | 1 |
| glycolipid metabolic process | 1 |
| primary metabolic process | 1 |
| protein O-linked glycosylation | 1 |
| sphingolipid metabolic process | 1 |
| biosynthetic process | 1 |
| carbohydrate derivative metabolic process | 1 |
| transferase activity | 1 |
| acetylglucosaminyltransferase activity | 1 |
| binding | 1 |
| UDP-galactosyltransferase activity | 1 |
| beta-1,3-galactosyltransferase activity | 1 |
| catalytic activity | 1 |
| glycosyltransferase activity | 1 |
| Golgi apparatus | 1 |
| bounding membrane of organelle | 1 |
| cytoplasm | 1 |
| endomembrane system | 1 |
| intracellular membrane-bounded organelle | 1 |
| cellular anatomical structure | 1 |
Protein interactions and networks
STRING
792 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| B3GNT5 | A4GALT | Q9NPC4 | 612 |
| B3GNT5 | AMIGO2 | Q86SJ2 | 588 |
| B3GNT5 | B4GALT5 | O43286 | 570 |
| B3GNT5 | B4GALT4 | O60513 | 565 |
| B3GNT5 | ST3GAL5 | Q9UNP4 | 538 |
| B3GNT5 | B4GALT6 | Q9UBX8 | 536 |
| B3GNT5 | MCF2L2 | Q86YR7 | 527 |
| B3GNT5 | ST6GALNAC6 | Q969X2 | 518 |
| B3GNT5 | B4GALT1 | P15291 | 512 |
| B3GNT5 | SLC10A6 | Q3KNW5 | 489 |
| B3GNT5 | CHPF | Q8IZ52 | 476 |
| B3GNT5 | RFNG | Q9Y644 | 469 |
| B3GNT5 | ST3GAL6 | Q9Y274 | 466 |
| B3GNT5 | POFUT4 | Q495W5 | 462 |
| B3GNT5 | LFNG | Q8NES3 | 461 |
IntAct
7 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| B3GNT5 | DCDC2 | psi-mi:“MI:0915”(physical association) | 0.560 |
| B3GNT5 | CRNN | psi-mi:“MI:0915”(physical association) | 0.400 |
| B3GNT5 | CBX7 | psi-mi:“MI:0915”(physical association) | 0.370 |
| SLC30A8 | UPK3BL1 | psi-mi:“MI:0914”(association) | 0.350 |
| B3GNT5 | DCDC2 | psi-mi:“MI:0915”(physical association) | 0.000 |
BioGRID (7): B3GNT5 (Two-hybrid), B3GNT5 (Affinity Capture-RNA), B3GNT5 (Affinity Capture-RNA), CRNN (Affinity Capture-MS), B3GNT5 (Positive Genetic), B3GNT5 (Affinity Capture-MS), CBX7 (Two-hybrid)
ESM2 similar proteins: A0A2C9JXL4, E9Q649, O95395, P0DN25, P97402, Q08BL3, Q0VC84, Q18515, Q24342, Q3SX46, Q499P3, Q5F3G7, Q5HZL5, Q5U258, Q5XJP0, Q5YB40, Q66GS2, Q6A1G2, Q6DE15, Q6DJR8, Q6GNL1, Q6P3P5, Q6P6V1, Q6WV16, Q6Y288, Q7K237, Q7SYI5, Q7T3S5, Q7Z1Z1, Q864U8, Q866Z5, Q8BGY6, Q8BHT6, Q8L7M1, Q8LPF8, Q8N0V5, Q8NCW6, Q96EU7, Q99NB2, Q9BYG0
Diamond homologs: A8MXE2, O43825, O54904, O54905, O75752, O88178, O96024, Q1RLK6, Q5HZL5, Q5JCS9, Q5R5Y3, Q5RAL7, Q66H69, Q6AY39, Q6DE15, Q6P3P5, Q793U7, Q7JK24, Q7JK25, Q7JK26, Q7T3S5, Q864U6, Q864U8, Q8BGY6, Q8R3I9, Q920V1, Q95US5, Q99NB2, Q9BYG0, Q9C0J1, Q9JI67, Q9MYM7, Q9N293, Q9N294, Q9N295, Q9Y2A9, Q9Y2C3, Q9Y5Z6, Q9Z0F0, Q3USF0
SIGNOR signaling
0 interactions.
Disease & clinical
Clinical variants and AI predictions
ClinVar
48 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 0 |
| Likely pathogenic | 0 |
| Uncertain significance | 42 |
| Likely benign | 2 |
| Benign | 0 |
Top pathogenic / likely-pathogenic (0)
SpliceAI
1275 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 3:183276866:TCTTA:T | donor_loss | 1.0000 |
| 3:183276867:CTTA:C | donor_loss | 1.0000 |
| 3:183276868:TTACC:T | donor_loss | 1.0000 |
| 3:183276869:TACCT:T | donor_loss | 1.0000 |
| 3:183276870:ACCT:A | donor_loss | 1.0000 |
| 3:183296970:CATTA:C | donor_loss | 1.0000 |
| 3:183296971:ATTAC:A | donor_loss | 1.0000 |
| 3:183296972:TTACC:T | donor_loss | 1.0000 |
| 3:183296973:TAC:T | donor_loss | 1.0000 |
| 3:183296974:A:AT | donor_loss | 1.0000 |
| 3:183296975:C:CA | donor_loss | 1.0000 |
| 3:183276871:CCTG:C | donor_gain | 0.9900 |
| 3:183276954:CACT:C | acceptor_gain | 0.9900 |
| 3:183276956:CT:C | acceptor_gain | 0.9900 |
| 3:183276958:C:CC | acceptor_gain | 0.9900 |
| 3:183276958:C:G | acceptor_gain | 0.9900 |
| 3:183276958:CT:C | acceptor_loss | 0.9900 |
| 3:183276963:G:GC | acceptor_gain | 0.9900 |
| 3:183295477:CCT:C | acceptor_loss | 0.9900 |
| 3:183295478:C:CA | acceptor_loss | 0.9900 |
| 3:183295478:C:CC | acceptor_gain | 0.9900 |
| 3:183295479:T:G | acceptor_loss | 0.9900 |
| 3:183295482:A:T | acceptor_gain | 0.9900 |
| 3:183257441:G:GG | donor_gain | 0.9800 |
| 3:183257448:A:G | donor_gain | 0.9800 |
| 3:183269486:T:A | acceptor_gain | 0.9800 |
| 3:183276955:ACT:A | acceptor_gain | 0.9800 |
| 3:183276956:CTC:C | acceptor_gain | 0.9800 |
| 3:183276957:TCT:T | acceptor_gain | 0.9800 |
| 3:183297165:GACC:G | acceptor_loss | 0.9800 |
AlphaMissense
0 scored. Top likely-pathogenic:
dbSNP variants (sampled 300 via entrez): RS1000127211 (3:183265117 T>G), RS1000350122 (3:183255695 G>C), RS1000384316 (3:183254905 G>A), RS1000612932 (3:183254098 C>G,T), RS1000688159 (3:183254382 C>T), RS1000868337 (3:183260314 C>T), RS1001299114 (3:183260647 C>T), RS1001322536 (3:183257278 G>C,T), RS1001354613 (3:183257613 A>G), RS1001527868 (3:183263277 G>A), RS1001574529 (3:183251273 G>A), RS1001832757 (3:183263636 A>T), RS1001905846 (3:183266946 C>T), RS1001926578 (3:183268961 G>C,T), RS1002024205 (3:183258641 A>C,G)
Disease associations
OMIM: gene MIM:615333 | disease phenotypes:
GenCC curated gene-disease
Mondo (1): primary ovarian failure (MONDO:0005387)
Orphanet (1): NON RARE IN EUROPE: Primary ovarian failure (Orphanet:619)
HPO phenotypes
0 total (0 of 0 shown, HPO-id order):
GWAS associations
0 associations (top):
MeSH disease descriptors (1)
| Descriptor | Name | Tree numbers |
|---|---|---|
| D016649 | Primary Ovarian Insufficiency | C12.050.351.500.056.630.750; C12.100.250.056.630.750; C19.391.630.750 |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: no
PharmGKB: 1 entry (VIP=true, CPIC=false)
CTD chemical–gene interactions
54 total (human), top 30 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| Valproic Acid | affects expression, decreases expression | 6 |
| sodium arsenite | decreases expression, increases abundance, increases expression | 2 |
| entinostat | decreases expression, affects cotreatment | 2 |
| belinostat | decreases expression, affects cotreatment | 2 |
| Cisplatin | affects cotreatment, decreases expression, increases expression | 2 |
| Estradiol | decreases expression | 2 |
| Formaldehyde | increases expression | 2 |
| Asbestos, Crocidolite | affects expression, increases expression | 2 |
| aristolochic acid I | decreases expression | 1 |
| 3-((6-(2-methoxyphenyl)pyrimidin-4-yl)amino)phenyl)methane sulfonamide | decreases expression | 1 |
| triphenyl phosphate | affects expression | 1 |
| bisphenol A | affects cotreatment, decreases expression | 1 |
| 2-methyl-4-isothiazolin-3-one | increases expression | 1 |
| trichostatin A | decreases expression | 1 |
| beta-lapachone | decreases expression | 1 |
| sulforaphane | increases expression | 1 |
| potassium chromate(VI) | decreases expression | 1 |
| 2,3-bis(3’-hydroxybenzyl)butyrolactone | affects cotreatment, decreases expression | 1 |
| nickel sulfate | increases expression | 1 |
| di-n-butylphosphoric acid | affects expression | 1 |
| 4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide | affects cotreatment, decreases expression | 1 |
| abrine | increases expression | 1 |
| dorsomorphin | affects cotreatment, decreases expression | 1 |
| jinfukang | affects cotreatment, decreases expression | 1 |
| NSC 689534 | increases expression, affects binding | 1 |
| PCI 5002 | affects cotreatment, increases expression | 1 |
| Resveratrol | affects cotreatment, decreases expression | 1 |
| Sunitinib | decreases expression | 1 |
| Arsenic | increases expression, increases abundance | 1 |
| Clorgyline | increases expression | 1 |
Clinical trials (associated diseases)
75 trials via MONDO — disease-level, not drug-specific.
| Trial | Phase | Status | Title |
|---|---|---|---|
| NCT00417066 | PHASE4 | COMPLETED | Flexible GnRH Antagonist vs Flare up GnRH Agonist Protocol in Poor Responders |
| NCT00732693 | PHASE4 | COMPLETED | Evaluation of Physiologic and Standard Sex Steroid Replacement Regimens in Women With Premature Ovarian Failure |
| NCT00837616 | PHASE4 | COMPLETED | Estrogen Dosing in Turner Syndrome: Pharmacology and Metabolism |
| NCT01853501 | PHASE4 | UNKNOWN | Effects of ADSC Therapy in Women With POF |
| NCT02783937 | PHASE4 | COMPLETED | Filgrastim for Premature Ovarian Insufficiency |
| NCT03535480 | PHASE4 | UNKNOWN | Autologous Bone Marrow Stem Cell Ovarian Transplantation to Restore Ovarian Function in Premature Ovarian Failure |
| NCT00140998 | PHASE3 | COMPLETED | Estrogen Treatment (Oral vs. Patches) in Turner Syndrome |
| NCT00001951 | PHASE2 | COMPLETED | Hormone Replacement in Young Women With Premature Ovarian Failure |
| NCT00370019 | PHASE2 | WITHDRAWN | Effects of an Estrogen Replacement Therapy Skin Patch on Ovulation in Women With Premature Ovarian Failure |
| NCT00429494 | PHASE2 | COMPLETED | GnRH Analogue for Ovarian Function Preservation in Hematopoietic Stem Cell Transplantation Patients |
| NCT03816852 | PHASE2 | SUSPENDED | The Safety and Efficiency Study of Mesenchymal Stem Cell (19#iSCLife®-POI) in Premature Ovarian Insufficiency |
| NCT04536467 | PHASE2 | UNKNOWN | Prevention of Chemotherapy-Induced Ovarian Failure With Goserelin in Premenopausal Lymphoma Patients |
| NCT06117982 | PHASE2 | COMPLETED | The Impact of Granulocyte Colony Stimulating Factor on Premature Ovarian Insufficiency |
| NCT02912104 | PHASE1 | COMPLETED | A Therapeutic Trial of Human Amniotic Epithelial Cells Transplantation for Primary Ovarian Failure |
| NCT03178695 | PHASE1 | COMPLETED | Inovium Ovarian Rejuvenation Trials |
| NCT04815213 | PHASE1 | ACTIVE_NOT_RECRUITING | The Use of Expandeded Mesenchymal Stromal Cells (MSC) in Premature Ovarian Failure (POF) in Adult Humans |
| NCT05138367 | PHASE1 | COMPLETED | Effects of UCA-PSCs in Women With POF |
| NCT06132542 | PHASE1 | UNKNOWN | Autologous ADMSC Transplantation in Patients With POI |
| NCT00948857 | PHASE2/PHASE3 | TERMINATED | Dehydroepiandrosterone (DHEA) Treatment and Premature Ovarian Failure (POF) |
| NCT04031456 | PHASE2/PHASE3 | RECRUITING | Autologous PRP Infusion May Restore Ovarian Function and May Promote Folliculogenesis in POI Patients |
| NCT02043743 | PHASE1/PHASE2 | UNKNOWN | Autologous Stem Cells Transplantation in Patients With Idiopathic and Drug Induced Premature Ovarian Failure |
| NCT02062931 | PHASE1/PHASE2 | UNKNOWN | Autologous Mesenchymal Stem Cells Transplantation In Women With Premature Ovarian Failure |
| NCT02151890 | PHASE1/PHASE2 | COMPLETED | Pregnancy After Stem Cell Transplantation in Premature Ovarian Failure |
| NCT02372474 | PHASE1/PHASE2 | COMPLETED | It is a Real The First Baby Of Autologous Stem Cell Therapy in Premature Ovarian Failure |
| NCT02603744 | PHASE1/PHASE2 | UNKNOWN | Autologous Adipose Derived Mesenchymal Stromal Cells Transplantation in Women With Premature Ovarian Failure (POF) |
| NCT02644447 | PHASE1/PHASE2 | COMPLETED | Transplantation of HUC-MSCs With Injectable Collagen Scaffold for POF |
| NCT03069209 | PHASE1/PHASE2 | UNKNOWN | Autologous Bone Marrow-Derived Stem Cell Transplantation in Patients With Premature Ovarian Failure (POF) |
| NCT03985462 | PHASE1/PHASE2 | WITHDRAWN | Very Small Embryonic-like Stem Cells for Ovary |
| NCT04009473 | PHASE1/PHASE2 | UNKNOWN | Stem Cell Therapy and Growth Factor Ovarian in Vitro Activation |
| NCT04071574 | PHASE1/PHASE2 | COMPLETED | Comparative Study on the Efficacy of Ovarian Stimulation Protocols on the Success Rate of ICSI in Female Infertility |
| NCT04922398 | PHASE1/PHASE2 | UNKNOWN | Ovarian Injection of PRP (Platelet -Rich Plasma) Vs Normal Saline in Premature Ovarian Insufficiency |
| NCT05462379 | PHASE1/PHASE2 | ACTIVE_NOT_RECRUITING | Autologous Heterotopic Fresh Ovarian Graft in Woman With LACC Eligible for Pelvic Radiotherapy Treatment. |
| NCT06202547 | PHASE1/PHASE2 | UNKNOWN | Intra-ovarian Injection of MSC-EVs in Idiopathic Premature Ovarian Failure |
| NCT01129947 | EARLY_PHASE1 | WITHDRAWN | The Use of DHEA in Women With Premature Ovarian Failure |
| NCT05522634 | EARLY_PHASE1 | UNKNOWN | A Clinical Study of Chinese Herbal Compound TJAOA101 in the Treatment of Premature Ovarian Insufficiency |
| NCT07308327 | EARLY_PHASE1 | ACTIVE_NOT_RECRUITING | The Influence of Gut Microbiota on Ovarian Function: A Single-center, Randomized,Double Blind, Parallel-controlled, Exploratory Clinical Trial |
| NCT00001275 | Not specified | COMPLETED | Ovarian Follicle Function in Patients With Primary Ovarian Failure |
| NCT00001306 | Not specified | COMPLETED | Steroid Therapy in Autoimmune Premature Ovarian Failure |
| NCT00006156 | Not specified | COMPLETED | Feasibility Study for Development of an Early Test for Ovarian Failure |
| NCT00119925 | Not specified | UNKNOWN | ‘SPRING’-Study: Subfertility Guidelines: Patient Related Implementation in the Netherlands Among Gynaecologists |
Related Atlas pages
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): primary ovarian failure