CBLL2
gene geneOn this page
Also known as FLJ25735HAKAILCT138
Summary
CBLL2 (Cbl proto-oncogene like 2, HGNC:26371) is a protein-coding gene on chromosome Xp22.11, encoding E3 ubiquitin-protein ligase CBLL2 (Q8N7E2). E3 ubiquitin ligase catalyzing the covalent attachment of ubiquitin moieties onto substrate proteins.
This gene encodes a member of the zinc finger domain-containing protein family. This family member contains both a RING-type and a C2H2-type of zinc finger domain, and it may function as an E3 ubiquitin-protein ligase. Protein localization suggests a role in human sperm production and quality control.
Source: NCBI Gene 158506 — RefSeq curated summary.
At a glance
- Clinical variants (ClinVar): 69 total — 7 pathogenic
- GTEx eGene: eQTL in 1 tissue, sQTL in 0 (q < 0.05)
- MANE Select transcript:
NM_152577 - Notable: 69 clinical variants but no curated precision-oncology (CIViC) evidence yet
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:26371 |
| Approved symbol | CBLL2 |
| Name | Cbl proto-oncogene like 2 |
| Location | Xp22.11 |
| Locus type | gene with protein product |
| Status | Approved |
| Aliases | FLJ25735, HAKAIL, CT138 |
| Ensembl gene | ENSG00000175809 |
| Ensembl biotype | protein_coding |
| Entrez | 158506 |
Gene structure
Transcript identifiers
Ensembl transcripts: 1 — 1 protein_coding
MANE Select: ENST00000323684
ENST00000323684
RefSeq mRNA: 1 — MANE Select: NM_152577
NM_152577
CCDS: CCDS14205
Canonical transcript exons
ENST00000323684 — 1 exons
| Exon | Start | End |
|---|---|---|
| ENSE00001284854 | 22272913 | 22274461 |
Expression profiles
Bgee: expression breadth broad, 11 present calls, max score 84.69.
Highest expression (Bgee): sperm, testis, upper leg skin, skin of hip, adult organism.
Genetic regulation across tissues (GTEx eQTL / sQTL)
CBLL2 is an eGene in GTEx v10 — its expression is genetically regulated (eQTL) in 1 tissue and its splicing (sQTL) in 0 (q < 0.05). Strongest associations first; slope = normalized effect of the lead variant’s alternative allele.
1 significant tissue × QTL associations:
| Tissue | QTL | q-value | Slope | Lead variant |
|---|---|---|---|---|
| Testis | eqtl | 2.0e-02 | +0.17 | X:21667685:T:C |
Top tissues by expression
showing 100 of 235 tissues by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| sperm | CL:0000019 | 84.69 | gold quality |
| left testis | UBERON:0004533 | 72.81 | gold quality |
| right testis | UBERON:0004534 | 70.84 | gold quality |
| testis | UBERON:0000473 | 70.38 | gold quality |
| upper leg skin | UBERON:0004262 | 52.71 | silver quality |
| skin of hip | UBERON:0001554 | 52.52 | silver quality |
| adult organism | UBERON:0007023 | 43.96 | gold quality |
| skeletal muscle tissue of rectus abdominis | UBERON:0004511 | 43.37 | gold quality |
| secondary oocyte | CL:0000655 | 42.57 | gold quality |
| germinal epithelium of ovary | UBERON:0001304 | 41.99 | gold quality |
| inferior vagus X ganglion | UBERON:0005363 | 41.75 | gold quality |
| vastus lateralis | UBERON:0001379 | 41.41 | gold quality |
| quadriceps femoris | UBERON:0001377 | 41.37 | gold quality |
| superficial temporal artery | UBERON:0001614 | 41.33 | gold quality |
| palpebral conjunctiva | UBERON:0001812 | 41.10 | gold quality |
| mucosa of paranasal sinus | UBERON:0005030 | 40.98 | gold quality |
| amniotic fluid | UBERON:0000173 | 40.69 | gold quality |
| jejunal mucosa | UBERON:0000399 | 40.59 | gold quality |
| biceps brachii | UBERON:0001507 | 40.57 | gold quality |
| epithelium of nasopharynx | UBERON:0001951 | 40.45 | gold quality |
| myocardium | UBERON:0002349 | 40.45 | gold quality |
| gingival epithelium | UBERON:0001949 | 40.43 | gold quality |
| esophagus squamous epithelium | UBERON:0006920 | 40.29 | gold quality |
| skeletal muscle tissue of biceps brachii | UBERON:0004502 | 40.27 | gold quality |
| jejunum | UBERON:0002115 | 40.18 | gold quality |
| mammary duct | UBERON:0001765 | 40.07 | gold quality |
| cartilage tissue | UBERON:0002418 | 40.06 | gold quality |
| oviduct epithelium | UBERON:0004804 | 40.03 | gold quality |
| mucosa of sigmoid colon | UBERON:0004993 | 39.95 | gold quality |
| bronchial epithelial cell | CL:0002328 | 39.84 | gold quality |
| deltoid | UBERON:0001476 | 39.83 | gold quality |
| saphenous vein | UBERON:0007318 | 39.83 | gold quality |
| parotid gland | UBERON:0001831 | 39.81 | gold quality |
| bronchus | UBERON:0002185 | 39.81 | gold quality |
| oocyte | CL:0000023 | 39.80 | gold quality |
| urethra | UBERON:0000057 | 39.80 | gold quality |
| heart right ventricle | UBERON:0002080 | 39.79 | gold quality |
| pericardium | UBERON:0002407 | 39.77 | gold quality |
| layer of synovial tissue | UBERON:0007616 | 39.77 | gold quality |
| endothelial cell | CL:0000115 | 39.75 | 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 |
| decidua | UBERON:0002450 | 39.65 | gold quality |
| penis | UBERON:0000989 | 39.64 | gold quality |
| gingiva | UBERON:0001828 | 39.64 | gold quality |
| trigeminal ganglion | UBERON:0001675 | 39.63 | gold quality |
| tendon of biceps brachii | UBERON:0008188 | 39.60 | gold quality |
| superior surface of tongue | UBERON:0007371 | 39.56 | gold quality |
| pylorus | UBERON:0001166 | 39.55 | gold quality |
| renal medulla | UBERON:0000362 | 39.53 | gold quality |
| pons | UBERON:0000988 | 39.51 | gold quality |
| thymus | UBERON:0002370 | 39.50 | gold quality |
| medulla oblongata | UBERON:0001896 | 39.48 | gold quality |
| superior vestibular nucleus | UBERON:0007227 | 39.47 | gold quality |
| cardia of stomach | UBERON:0001162 | 39.46 | gold quality |
| colonic mucosa | UBERON:0000317 | 39.45 | gold quality |
| parietal pleura | UBERON:0002400 | 39.45 | gold quality |
| Brodmann (1909) area 23 | UBERON:0013554 | 39.40 | gold quality |
| dorsal plus ventral thalamus | UBERON:0001897 | 39.38 | gold quality |
| tongue | UBERON:0001723 | 39.37 | gold quality |
| cerebellar vermis | UBERON:0004720 | 39.37 | gold quality |
| oral cavity | UBERON:0000167 | 39.35 | gold quality |
| subthalamic nucleus | UBERON:0001906 | 39.35 | gold quality |
| ventral tegmental area | UBERON:0002691 | 39.35 | gold quality |
| trachea | UBERON:0003126 | 39.33 | gold quality |
| parietal lobe | UBERON:0001872 | 39.32 | gold quality |
| vena cava | UBERON:0004087 | 39.31 | gold quality |
| pharyngeal mucosa | UBERON:0000355 | 39.27 | gold quality |
| substantia nigra pars compacta | UBERON:0001965 | 39.23 | gold quality |
| visceral pleura | UBERON:0002401 | 39.23 | gold quality |
| postcentral gyrus | UBERON:0002581 | 39.23 | gold quality |
| body of tongue | UBERON:0011876 | 39.22 | gold quality |
| medial globus pallidus | UBERON:0002477 | 39.18 | gold quality |
| trabecular bone tissue | UBERON:0002483 | 39.18 | gold quality |
| globus pallidus | UBERON:0001875 | 39.15 | gold quality |
| substantia nigra pars reticulata | UBERON:0001966 | 39.11 | gold quality |
| entorhinal cortex | UBERON:0002728 | 39.05 | gold quality |
| nasal cavity epithelium | UBERON:0005384 | 39.04 | gold quality |
| lateral nuclear group of thalamus | UBERON:0002736 | 39.00 | gold quality |
| corpus epididymis | UBERON:0004359 | 38.98 | gold quality |
| tibia | UBERON:0000979 | 38.93 | gold quality |
| lateral globus pallidus | UBERON:0002476 | 38.81 | gold quality |
| seminal vesicle | UBERON:0000998 | 38.75 | gold quality |
| caput epididymis | UBERON:0004358 | 38.75 | gold quality |
| cauda epididymis | UBERON:0004360 | 38.74 | gold quality |
| middle temporal gyrus | UBERON:0002771 | 38.72 | gold quality |
| mammalian vulva | UBERON:0000997 | 38.66 | gold quality |
| pigmented layer of retina | UBERON:0001782 | 38.55 | gold quality |
| bone marrow cell | CL:0002092 | 38.36 | gold quality |
| skeletal muscle tissue | UBERON:0001134 | 38.20 | gold quality |
| Brodmann (1909) area 46 | UBERON:0006483 | 37.40 | gold quality |
| bone marrow | UBERON:0002371 | 37.23 | gold quality |
| colonic epithelium | UBERON:0000397 | 37.20 | gold quality |
| muscle tissue | UBERON:0002385 | 37.18 | gold quality |
| superior frontal gyrus | UBERON:0002661 | 36.54 | gold quality |
| ventricular zone | UBERON:0003053 | 36.48 | gold quality |
| cortical plate | UBERON:0005343 | 36.47 | gold quality |
| mammary gland | UBERON:0001911 | 36.23 | gold quality |
| placenta | UBERON:0001987 | 36.19 | gold quality |
Single-cell (SCXA)
Detected in 1 experiment(s), a significant marker in 1.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-ANND-3 | yes | 2.63 |
HPA expression
RNA tissue specificity: Tissue enriched
20 HPA tissues / cells by nTPM:
| Tissue / cell | Axis | nTPM |
|---|---|---|
| Testis | tissue | 7.1 |
| Cerebellum | tissue | 1.2 |
| Midbrain | tissue | 0.6 |
| Medulla oblongata | tissue | 0.6 |
| Hypothalamus | tissue | 0.6 |
| Cerebral cortex | tissue | 0.5 |
| Pons | tissue | 0.5 |
| Basal ganglia | tissue | 0.5 |
| Thalamus | tissue | 0.5 |
| Putamen | tissue | 0.4 |
| Amygdala | tissue | 0.4 |
| Substantia nigra | tissue | 0.4 |
| Spinal cord | tissue | 0.4 |
| Hippocampal formation | tissue | 0.4 |
| Nucleus accumbens | tissue | 0.3 |
| Locus coeruleus | tissue | 0.3 |
| Hippocampus | tissue | 0.3 |
| Retrosplenial cortex | tissue | 0.3 |
| Occipital cortex | tissue | 0.3 |
| Postcentral gyrus | tissue | 0.2 |
Brain sub-regions (HPA Brain Atlas): detected in 184; highest nTPM — Vermis (1.2), Flocculonodular lobe (1.0), Cerebellar cortex (0.9), Arcuate nucleus (0.6), Nucleus tractus solitarii (0.6).
Regulation
Is transcription factor: no
miRNA regulators (miRDB)
Targeting CBLL2 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific).
15 miRNAs:
| miRNA | Max score | Avg score | miRNA target_count |
|---|---|---|---|
| HSA-MIR-4267 | 99.96 | 66.53 | 2368 |
| HSA-MIR-144-3P | 99.94 | 73.98 | 2698 |
| HSA-MIR-101-3P | 99.94 | 75.03 | 2230 |
| HSA-MIR-205-3P | 99.92 | 69.92 | 3165 |
| HSA-MIR-448 | 99.79 | 72.37 | 2103 |
| HSA-MIR-370-5P | 99.78 | 66.81 | 706 |
| HSA-MIR-379-3P | 99.69 | 69.60 | 1524 |
| HSA-MIR-411-3P | 99.69 | 69.63 | 1524 |
| HSA-MIR-584-3P | 99.35 | 67.69 | 1082 |
| HSA-MIR-4635 | 98.74 | 67.63 | 1339 |
| HSA-MIR-11399 | 98.71 | 65.69 | 869 |
| HSA-MIR-4277 | 98.34 | 67.17 | 1323 |
| HSA-MIR-93-3P | 98.15 | 66.65 | 1309 |
| HSA-MIR-6847-5P | 97.93 | 66.74 | 1808 |
| HSA-MIR-3928-3P | 97.61 | 66.53 | 1096 |
Functional genomics
Regional missense constraint (gnomAD RMC): no regional variation along ENST00000323684 — one region, missense o/e 1.01.
Literature-anchored findings (GeneRIF, showing 1)
- A novel RING finger protein, ZNF645, which is expressed specifically in human testis and sperm and has E3 ubiquitin ligase activity. (PMID:20657603)
Cross-species orthologs
2 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | cbll1 | ENSDARG00000015222 |
| drosophila_melanogaster | Hakai | FBGN0032812 |
Paralogs (1): CBLL1 (ENSG00000105879)
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 |
|---|---|---|---|
| Macaca fascicularis | Q4R7I8 | 99.6% | Diamond |
| Mus musculus | Q9JIY2 | 95.3% | Diamond |
| Gallus gallus | Q5ZHZ4 | 89.7% | Diamond |
| Xenopus laevis | Q4V7X9 | 75.3% | Diamond |
| Arabidopsis thaliana | Q9LFC0 | 38.4% | 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 |
|---|---|---|
| PHEX-AS1 | ncRNA | 100873942 |
| PTCHD1 | protein-coding | 139411 |
| DDX53 | protein-coding | 168400 |
| PHEX | protein-coding | 5251 |
| SMS | protein-coding | 6611 |
| PTCHD1-AS | ncRNA | 100873065 |
Protein
Protein identifiers
E3 ubiquitin-protein ligase CBLL2 — Q8N7E2 (reviewed: Q8N7E2)
Alternative names: Cbl proto-oncogene-like protein 2, RING-type E3 ubiquitin transferase ZNF645, Zinc finger protein 645, c-Cbl-like protein 2
All UniProt accessions (1): Q8N7E2
UniProt curated annotations — full annotation on UniProt →
Function. E3 ubiquitin ligase catalyzing the covalent attachment of ubiquitin moieties onto substrate proteins. May operate on tyrosine-phosphorylated SRC substrates.
Subunit / interactions. Homodimer.
Subcellular location. Cytoplasm.
Tissue specificity. Exclusively expressed in testis and sperm, including spermatocytes, round and elongated spermatids, and Leydig cells.
Domain organisation. The HYB domain forms a phosphotyrosine-binding pocket upon dimerization, and mediates as well the recognition of its flanking acidic amino acids.
Pathway. Protein modification; protein ubiquitination.
RefSeq proteins (1): NP_689790* (*=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR001841 | Znf_RING | Domain |
| IPR013083 | Znf_RING/FYVE/PHD | Homologous_superfamily |
| IPR013087 | Zf-C2H2_type | Domain |
| IPR017907 | Znf_RING_CS | Conserved_site |
| IPR040380 | HAKAI-like_RING-HC | Domain |
| IPR040383 | HAKAI/CBLL2 | Family |
| IPR041042 | Znf_Hakai | Domain |
Pfam: PF18408
UniProt features (12 total): region of interest 3, zinc finger region 2, sequence conflict 2, compositionally biased region 2, sequence variant 2, chain 1
Structure
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-Q8N7E2-F1 | 55.14 | 0.18 |
Human Protein Atlas
Protein class: Enzymes, ENZYME proteins, Transferases, Metabolic proteins, Predicted intracellular proteins
Protein evidence: Evidence at protein level
Function
Pathways and Gene Ontology
Reactome pathways
1 curated (TAS) of 4; 0 disease pathways. Curated-first; evidence = TAS (manually curated) vs IEA (electronic inference).
4 pathways:
| ID | Pathway | Evidence |
|---|---|---|
| R-HSA-983168 | Antigen processing: Ubiquitination & Proteasome degradation | curated |
| R-HSA-1280218 | Adaptive Immune System | — |
| R-HSA-983169 | Class I MHC mediated antigen processing & presentation | — |
| R-HSA-168256 | Immune System | — |
MSigDB gene sets: 20 (showing top):
REACTOME_ADAPTIVE_IMMUNE_SYSTEM, REACTOME_CLASS_I_MHC_MEDIATED_ANTIGEN_PROCESSING_PRESENTATION, REACTOME_ANTIGEN_PROCESSING_UBIQUITINATION_PROTEASOME_DEGRADATION, GOBP_POST_TRANSLATIONAL_PROTEIN_MODIFICATION, GOCC_TRANSFERASE_COMPLEX, GOCC_METHYLTRANSFERASE_COMPLEX, GOMF_ACYLTRANSFERASE_ACTIVITY, GOMF_AMINOACYLTRANSFERASE_ACTIVITY, GOMF_UBIQUITIN_LIKE_PROTEIN_LIGASE_ACTIVITY, chrXp22, YAP1_DN, MIR448, MIR584_3P, MIR3928_3P, GOBP_PROTEIN_MODIFICATION_BY_SMALL_PROTEIN_CONJUGATION
GO Biological Process (2): protein ubiquitination (GO:0016567), regulation of cell adhesion (GO:0030155)
GO Molecular Function (5): zinc ion binding (GO:0008270), ubiquitin protein ligase activity (GO:0061630), protein binding (GO:0005515), transferase activity (GO:0016740), metal ion binding (GO:0046872)
GO Cellular Component (3): nucleus (GO:0005634), cytoplasm (GO:0005737), RNA N6-methyladenosine methyltransferase complex (GO:0036396)
Reactome top-level categories
3 top-level categories:
| Category | Pathways |
|---|---|
| Class I MHC mediated antigen processing & presentation | 1 |
| Immune System | 1 |
| Adaptive Immune System | 1 |
GO top-level categories
13 GO namespaces:
| Category | Terms |
|---|---|
| protein modification by small protein conjugation | 1 |
| cell adhesion | 1 |
| regulation of cellular process | 1 |
| transition metal ion binding | 1 |
| ubiquitin-protein transferase activity | 1 |
| ubiquitin-like protein ligase activity | 1 |
| binding | 1 |
| catalytic activity | 1 |
| cation binding | 1 |
| intracellular membrane-bounded organelle | 1 |
| intracellular anatomical structure | 1 |
| cellular anatomical structure | 1 |
| methyltransferase complex | 1 |
Protein interactions and networks
STRING
showing 15 of 618 interactions by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| CBLL2 | RNF151 | Q2KHN1 | 390 |
| CBLL2 | OR1J4 | Q8NGS1 | 390 |
| CBLL2 | UBQLN4 | Q9NRR5 | 370 |
| CBLL2 | DNAJB2 | P25686 | 368 |
| CBLL2 | DDX20 | Q9UHI6 | 368 |
| CBLL2 | TRIM13 | O60858 | 360 |
| CBLL2 | SMCO3 | A2RU48 | 356 |
| CBLL2 | WTAP | Q15007 | 343 |
| CBLL2 | METTL14 | Q9HCE5 | 342 |
| CBLL2 | NUP214 | P35658 | 335 |
| CBLL2 | VIRMA | Q69YN4 | 325 |
| CBLL2 | OR5I1 | Q13606 | 322 |
| CBLL2 | OR2B11 | Q5JQS5 | 316 |
| CBLL2 | ZNF598 | Q86UK7 | 315 |
| CBLL2 | ZC3H13 | Q5T200 | 314 |
IntAct
Human interaction partners of CBLL2 in IntAct, one row per partner (best MIscore; records = supporting IntAct interaction records).
9 partners by confidence:
| Partner | Interaction type | MIscore | Records |
|---|---|---|---|
| CYSRT1 | physical association | 0.560 | 3 |
| KRTAP12-2 | physical association | 0.560 | 3 |
| LONRF1 | physical association | 0.560 | 3 |
| MAPK9 | physical association | 0.560 | 3 |
| MDFI | physical association | 0.560 | 3 |
| PIH1D2 | physical association | 0.560 | 3 |
| PRR13 | physical association | 0.560 | 3 |
| SRSF10 | association | 0.350 | 2 |
| COL1A1 | association | 0.350 | 1 |
SIGNOR signaling
1 signaling interactions:
| A | Effect | B | Mechanism |
|---|---|---|---|
| Ub:E2 | “up-regulates activity” | CBLL2 | ubiquitination |
Disease & clinical
Genetic variants
Variant evidence for CBLL2: 69 ClinVar records (7 pathogenic / likely pathogenic). Per-variant detail is on Sugi Variant.
ClinVar
69 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 7 |
| Likely pathogenic | 0 |
| Uncertain significance | 49 |
| Likely benign | 9 |
| Benign | 3 |
Top pathogenic / likely-pathogenic (7)
Showing all 7 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 |
|---|---|---|---|---|
| 438562 | NC_000023.10:g.22256748_22370988del114241 | Pathogenic | criteria provided, single submitter | 1 |
| 830979 | NC_000023.11:g.(?22168312)(22274269_?)del | Pathogenic | criteria provided, single submitter | 1 |
| 831244 | NC_000023.10:g.(?21990015)(22292386_?)del | Pathogenic | criteria provided, single submitter | 1 |
| 831597 | NC_000023.10:g.(?22094506)(22292386_?)del | Pathogenic | criteria provided, single submitter | 1 |
| 832361 | NC_000023.11:g.(?22245333)(22274269_?)del | Pathogenic | criteria provided, single submitter | 1 |
| 989452 | NC_000023.11:g.22213388_22345581del | Pathogenic | criteria provided, single submitter | 1 |
| 1013602 | NC_000023.11:g.22243338_22690207del | Pathogenic | criteria provided, single submitter | 1 |
Per-variant reference — Sugi Variant
Explore CBLL2’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; 15 predictions of 41):
| Position(s) | Effect | Δscore | Sites |
|---|---|---|---|
| X:22273042 | donor_gain | 0.7800 | |
| X:22274124 | acceptor_gain | 0.5300 | |
| X:22274087 | acceptor_gain | 0.4800 | |
| X:22274125 | acceptor_gain | 0.4700 | |
| X:22273075 | donor_gain | 0.4000 | |
| X:22274125 | acceptor_gain | 0.3700 | |
| X:22273027 | donor_gain | 0.3600 | |
| X:22274091–22274092 | acceptor_loss | 0.3600 | 5 |
| X:22274090–22274092 | acceptor_loss | 0.3500 | 2 |
| X:22274124 | acceptor_gain | 0.3400 |
AlphaMissense
261 missense substitutions predicted likely pathogenic (of 2,790 scored), across 68 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:
| Residue | Likely-pathogenic substitutions | Mean am_pathogenicity | Max am_pathogenicity |
|---|---|---|---|
| H75 | 8 | 0.837 | 0.948 |
| H133 | 8 | 0.812 | 0.935 |
| H138 | 8 | 0.750 | 0.876 |
| C57 | 7 | 0.926 | 0.950 |
| C78 | 7 | 0.911 | 0.950 |
| F112 | 7 | 0.905 | 0.983 |
| C73 | 7 | 0.880 | 0.924 |
| F77 | 7 | 0.879 | 0.978 |
| C114 | 7 | 0.875 | 0.932 |
| C93 | 7 | 0.868 | 0.942 |
| C60 | 7 | 0.864 | 0.938 |
| C120 | 7 | 0.850 | 0.926 |
| C81 | 7 | 0.849 | 0.902 |
| C96 | 7 | 0.823 | 0.907 |
| G68 | 6 | 0.855 | 0.932 |
| P63 | 6 | 0.810 | 0.911 |
| P72 | 6 | 0.810 | 0.879 |
| G47 | 6 | 0.796 | 0.930 |
| V100 | 6 | 0.691 | 0.861 |
| Y124 | 5 | 0.824 | 0.909 |
HPA cancer prognostics
RNA cancer specificity: Not detected
Disease associations
OMIM: gene `` | disease phenotypes: MIM:307800
GenCC curated gene-disease
Mondo (1): X-linked dominant hypophosphatemic rickets (MONDO:0010619)
Orphanet (1): X-linked hypophosphatemia (Orphanet:89936)
Drugs & pharmacology
Drug and pharmacology data
Is drug target: no
PharmGKB: 1 entry (CPIC guideline: no)
CTD chemical–gene interactions
3 total (human), top 3 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| CGP 52608 | affects binding, increases reaction | 1 |
| Benzo(a)pyrene | affects methylation | 1 |
| Permethrin | increases expression | 1 |
Cellosaurus cell lines
1 cell lines: 1 transformed cell line
First 10 cell lines (id-ordered, not curated):
| Cellosaurus | Name | Category | Sex |
|---|---|---|---|
| CVCL_XW72 | HEK293 eGFP-ZNF645 | Transformed cell line | Female |
Clinical trials (associated diseases)
Via MONDO — disease-level, not drug-specific.
45 trials:
| NCT | Phase | Status | Title |
|---|---|---|---|
| NCT03820518 | Phase 4 | UNKNOWN | Using Different Doses of Active Vitamin D Combined With Neutral Phosphate in Children With X-linked Hypophosphatemia |
| NCT04146935 | Phase 4 | COMPLETED | Examining the Effect of Burosumab on Muscle Function |
| NCT04419363 | Phase 4 | UNKNOWN | Burosumab in Children and Adolescents With X-linked Hypophosphatemia |
| NCT04842019 | Phase 4 | COMPLETED | Study to Assess the Safety, Pharmacokinetics and Efficacy of KRN23 in Adult Chinese Patients With XLH |
| NCT04842032 | Phase 4 | COMPLETED | Study to Assess the Safety, Pharmacokinetics and Efficacy of KRN23 in Pediatric Chinese Patients With XLH |
| NCT02526160 | Phase 3 | COMPLETED | Study of KRN23 in Adults With X-linked Hypophosphatemia (XLH) |
| NCT02537431 | Phase 3 | COMPLETED | Open Label Study of KRN23 on Osteomalacia in Adults With X-linked Hypophosphatemia (XLH) |
| NCT02915705 | Phase 3 | COMPLETED | Efficacy and Safety of Burosumab Versus Oral Phosphate and Active Vitamin D Treatment in Pediatric Patients With XLH |
| NCT03233126 | Phase 3 | COMPLETED | A Study of KRN23 in Pediatric Patients With X-linked Hypophosphatemic Rickets/Osteomalacia |
| NCT03920072 | Phase 3 | COMPLETED | Study of the Anti-FGF23 Antibody, Burosumab, in Adults With XLH |
| NCT04308096 | Phase 3 | COMPLETED | A Study of KRN23 in Adult and Pediatric Patients With X-linked Hypophosphatemic Rickets/Osteomalacia |
| NCT04695860 | Phase 3 | COMPLETED | Anti-FGF23 (Burosumab) in Adult Patients With XLH |
| NCT04872907 | Phase 3 | UNKNOWN | Prevention of Spontaneous Dental Abscesses in Children With X-linked Hypophosphatemia : a RCT |
| NCT02163577 | Phase 2 | COMPLETED | Study of KRN23 (Burosumab), a Recombinant Fully Human Monoclonal Antibody Against Fibroblast Growth Factor 23 (FGF23), in Pediatric Subjects With X-linked Hypophosphatemia (XLH) |
| NCT02312687 | Phase 2 | COMPLETED | Long-Term Extension Study of KRN23 in Adult Subjects With X-Linked Hypophosphatemia (XLH) |
| NCT02750618 | Phase 2 | COMPLETED | Study of the Safety, Pharmacodynamics (PD) and Efficacy of KRN23 in Children From 1 to 4 Years Old With X-linked Hypophosphatemia (XLH) |
| NCT00195936 | Phase 1 | COMPLETED | Effect of Cinacalcet on Parathyroid Hormone Secretion in Children and Adolescents With Hypophosphatemic Rickets |
| NCT00830674 | Phase 1 | COMPLETED | A Study of KRN23 in X-linked Hypophosphatemia |
| NCT02181764 | Phase 1 | COMPLETED | A Study of KRN23 in Subjects With X-linked Hypophosphatemic Rickets/Osteomalacia |
| NCT01340482 | Phase 1/2 | COMPLETED | A Repeated Study of KRN23 in Adults With X-Linked Hypophosphatemia |
| NCT01571596 | Phase 1/2 | COMPLETED | An Extension Study of KRN23 in Adults With X-Linked Hypophosphatemia |
| NCT02720770 | Phase 1/2 | COMPLETED | Growth Hormone Treatment in Children With Hypophosphatemic Rickets |
| NCT04188964 | Phase 1/2 | COMPLETED | Study to Assess the Safety, Tolerability, Pharmacokinetics and Efficacy of Burosumab in Patients Less Than 1 Year of Age |
| NCT06525636 | Phase 1/2 | RECRUITING | A First-in-human Study of KK8123 in Adults With X-linked Hypophosphatemia |
| NCT03748966 | Early Phase 1 | COMPLETED | Calcitriol Monotherapy for X-Linked Hypophosphatemia |
| NCT03771105 | Early Phase 1 | RECRUITING | The Impact of Phosphate Metabolism on Healthy Aging |
| NCT01652573 | Not specified | COMPLETED | Calcitonin for Treating X-linked Hypophosphatemia |
| NCT03193476 | Not specified | RECRUITING | Registry for Patients With X-Linked Hypophosphatemia |
| NCT03489993 | Not specified | COMPLETED | FGF23 and Angiotensin-(1-7) in Hypophosphatemia (GAP) |
| NCT03596554 | Not specified | COMPLETED | X-linked Hypophosphatemia and FGF21 |
| NCT03651505 | Not specified | ACTIVE_NOT_RECRUITING | X-linked Hypophosphatemia Disease Monitoring Program |
| NCT03745521 | Not specified | ACTIVE_NOT_RECRUITING | Study of Longitudinal Observation for Patient With X-linked Hypophosphatemic Rickets/Osteomalacia in Collaboration With Asian Partners |
| NCT03775187 | Not specified | AVAILABLE | Expanded Access to Burosumab |
| NCT03879915 | Not specified | UNKNOWN | Dental Implants in Patients With X-linked Hypophosphatemia |
| NCT04049877 | Not specified | COMPLETED | Retrospective and Prospective Disease Progression and Quality of Life in XLH |
| NCT04273490 | Not specified | COMPLETED | Characterising Pain, QoL, Body Composition, Arterial Stiffness, Muscles and Bones in Adult Persons With XLH and Healthy Controls |
| NCT04946409 | Not specified | ACTIVE_NOT_RECRUITING | Burden of Disease and Functional Impairment in XLH |
| NCT05181839 | Not specified | COMPLETED | A Study to Describe the Lived Experience of XLH for Adolescents at End of Skeletal Growth |
| NCT05312086 | Not specified | UNKNOWN | Muscle Abnormalities in Children With XLH |
| NCT05687474 | Not specified | COMPLETED | Baby Detect : Genomic Newborn Screening |
| NCT06067932 | Not specified | COMPLETED | Foot Disorders in X-linked Hypophosphatemia |
| NCT06248632 | Not specified | UNKNOWN | Effect of Burosumab on the Inflammatory Profile of Patients With X-linked Hypophosphatemic Rickets FLAM-XLH |
| NCT06921720 | Not specified | RECRUITING | Phosphorus-31 Spectroscopy in Phosphate Diabetes |
| NCT07183579 | Not specified | RECRUITING | Effective Dosing of Burosumab in XLH |
| NCT07607600 | Not specified | WITHDRAWN | Treatment Patterns, Biochemical Profiles and Clinical Outcomes in Adults With X-Linked Hypophosphatemia |
Related Atlas pages
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): X-linked dominant hypophosphatemic rickets