RGD DISEASE ONTOLOGY - ANNOTATIONS
RGD uses the Human Disease Ontology (DO, https://disease-ontology.org/) for disease curation across species. RGD automatically downloads each new release of the ontology on a monthly basis. Some additional terms which are required for RGD's curation purposes but are not currently covered in the official version of DO have been added. As corresponding terms are added to DO, these custom terms are retired and the DO terms substituted in existing annotations and subsequently used for curation.
Term: rickets
Accession: DOID:10609
browse the term
Definition: A bone remodeling disease that has_material_basis_in impaired mineralization or calcification of bones before epiphyseal closure due to deficiency or impaired metabolism of vitamin D, phosphorus or calcium which results_in softening and deformity located_in bone. (DO)
Synonyms: exact_synonym: Rachitides; Rachitis; active rickets; vitamin D hydroxylation-deficient rickets; vitamin D-dependent rickets
primary_id: MESH:D012279
xref: GARD:5700 ; ICD10CM:E55.0 ; NCI:C26878 ; ORDO:289157
For additional species annotation, visit the
Alliance of Genome Resources .
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Casr
calcium-sensing receptor
ISO
RGD
PMID:12671052
RGD:734698
NCBI chr11:67,188,204...67,262,261
Ensembl chr11:67,188,630...67,258,771
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Cyp27b1
cytochrome P450, family 27, subfamily b, polypeptide 1
ISO
vitamin D-dependent rickets type I, OMIM:264700;DNA:missense mutations: :R107H, G125E, R335P, P382S ClinVar Annotator: match by term: Vitamin D-Dependent Rickets CTD Direct Evidence: marker/mechanism
ClinVar CTD
PMID:16494812 , PMID:9486994 , PMID:11416220
RGD:1600874 , RGD:734871
NCBI chr 7:70,333,150...70,340,006
Ensembl chr 7:70,335,061...70,340,005
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Fam20c
FAM20C, golgi associated secretory pathway kinase
ISS
OMIM:264700 | OMIM:277440 | OMIM:600081 | OMIM:600785
MouseDO
NCBI chr12:17,913,771...17,972,733
Ensembl chr12:17,913,767...17,972,737
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Pth
parathyroid hormone
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:10375030
NCBI chr 1:178,215,829...178,218,761
Ensembl chr 1:178,215,829...178,218,761
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Pth1r
parathyroid hormone 1 receptor
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:10375030
NCBI chr 8:118,984,531...119,012,803
Ensembl chr 8:118,988,053...119,012,671
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Vdr
vitamin D receptor
ISO
VDDR II,OMIM:277440;DNA:point mutation:exon:p.G33D, p.R70G (human) ClinVar Annotator: match by term: Vitamin D-Dependent Rickets CTD Direct Evidence: marker/mechanism
ClinVar CTD
PMID:1338926 PMID:17451081 PMID:22466564 PMID:28492532 , PMID:2849209
RGD:1624354
NCBI chr 7:139,344,452...139,394,138
Ensembl chr 7:139,342,063...139,394,166
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Fgf23
fibroblast growth factor 23
ISO
DNA:missense mutations:exon:p.R176Q (527G>A), p.R179W (535C>T), p.R179Q (536G>A) (human) ClinVar Annotator: match by term: Autosomal dominant hypophosphatemic rickets ClinVar Annotator: match by term: Hypophosphatemic Rickets, Dominant DNA:missense mutation:cds:526C>T,p.R176W (human) ClinVar Annotator: match by OMIM:193100
ClinVar OMIM
PMID:1353055 PMID:5173181 PMID:9024275 PMID:11062477 PMID:11409890 PMID:11737582 PMID:11805436 PMID:12050201 PMID:12130585 PMID:12711740 PMID:12851820 PMID:12874285 PMID:15182416 PMID:15590700 PMID:15628294 PMID:15836777 PMID:15885032 PMID:16436388 PMID:17227222 PMID:17452648 PMID:17623664 PMID:17992255 PMID:18682534 PMID:18982401 PMID:21880793 PMID:22419710 PMID:24033266 PMID:25445451 PMID:26186302 PMID:26467025 PMID:28492532 , PMID:11062477 , PMID:19655082
RGD:1598933 , RGD:10044239
NCBI chr 4:159,622,404...159,630,082
Ensembl chr 4:159,622,404...159,630,082
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Dmp1
dentin matrix acidic phosphoprotein 1
ISO ISS
ClinVar Annotator: match by term: Hypophosphatemic Rickets, Recessive OMIM:241520 | OMIM:613312
ClinVar MouseDO
NCBI chr14:6,889,851...6,923,961
Ensembl chr14:6,889,856...6,900,733
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Enpp1
ectonucleotide pyrophosphatase/phosphodiesterase 1
ISO ISS
ClinVar Annotator: match by term: Hypophosphatemic Rickets, Recessive OMIM:241520 | OMIM:613312
ClinVar MouseDO
PMID:9662402 PMID:10453738 PMID:11771660 PMID:16025115 PMID:16609882 PMID:24033266 PMID:28492532
NCBI chr 1:21,748,201...21,813,205
Ensembl chr 1:21,748,261...21,813,371
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Clcn5
chloride voltage-gated channel 5
ISO
CTD Direct Evidence: marker/mechanism
CTD
NCBI chr X:16,170,585...16,196,691
Ensembl chr X:16,050,780...16,196,789
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Phex
phosphate regulating endopeptidase homolog, X-linked
ISO
CTD Direct Evidence: marker/mechanism ClinVar Annotator: match by term: Familial Hypophosphatemic Rickets
CTD ClinVar
PMID:3414685 PMID:9097956 PMID:9199930 PMID:9430241 PMID:11414762 PMID:11468271 PMID:12727977 PMID:18625346 PMID:18775977 PMID:24684036 PMID:25741868 PMID:28492532 PMID:29858904
NCBI chr X:40,460,047...40,717,982
Ensembl chr X:40,460,047...40,717,982
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Phyh
phytanoyl-CoA 2-hydroxylase
ISO
ClinVar Annotator: match by term: RICKETS, HEREDITARY VITAMIN D-RESISTANT
ClinVar
PMID:10767344 PMID:14974078 PMID:16186124 PMID:25741868 PMID:27229527 PMID:28492532
NCBI chr17:77,287,580...77,304,482
Ensembl chr17:77,287,188...77,304,530
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Vdr
vitamin D receptor
ISO
ClinVar Annotator: match by term: RICKETS, HEREDITARY VITAMIN D-RESISTANT
ClinVar
PMID:1652893 PMID:2174914 PMID:2177843 PMID:2557627 PMID:2558018 PMID:2849209 PMID:3024987 PMID:8392085 PMID:8675579 PMID:8862631 PMID:8961271 PMID:9005998 PMID:9360557 PMID:9495519 PMID:10707958 PMID:11564167 PMID:17130574 PMID:17371163 PMID:17970811 PMID:18159135 PMID:18279374 PMID:18593774 PMID:19682379 PMID:20200114 PMID:21168462 PMID:21931507 PMID:22992668 PMID:23180655 PMID:24033266 PMID:24073221 PMID:25741868 PMID:26177022 PMID:26198224 PMID:26590811 PMID:26631034 PMID:26911666 PMID:27164139 PMID:27607899 PMID:27778467 PMID:28492532
NCBI chr 7:139,344,452...139,394,138
Ensembl chr 7:139,342,063...139,394,166
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Pth
parathyroid hormone
ISO
protein:decreased expression:plasma (mouse)
RGD
PMID:19570882
RGD:7242924
NCBI chr 1:178,215,829...178,218,761
Ensembl chr 1:178,215,829...178,218,761
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Slc34a1
solute carrier family 34 member 1
ISO ISS
OMIM:241530 DNA:deletions, snps:multiple (human)
MouseDO
PMID:19570882 , PMID:16358215
RGD:7242924 , RGD:7242925
NCBI chr17:9,747,766...9,762,739
Ensembl chr17:9,747,752...9,762,813
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Slc34a3
solute carrier family 34 member 3
ISO
ClinVar Annotator: match by term: HYPERCALCIURIC RICKETS ClinVar Annotator: match by term: Hypophosphatemic rickets with hypercalciuria ClinVar Annotator: match by OMIM:241530
OMIM ClinVar
PMID:2983203 PMID:16358214 PMID:16358215 PMID:16849419 PMID:18523928 PMID:18996815 PMID:19820004 PMID:20074341 PMID:21344632 PMID:22159077 PMID:24246249 PMID:25741868 PMID:26399350 PMID:26789268 PMID:28492532 PMID:29809158 PMID:31440709 PMID:33223529
NCBI chr 3:2,448,391...2,454,019
Ensembl chr 3:2,448,381...2,453,933
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Dmp1
dentin matrix acidic phosphoprotein 1
ISO
ClinVar Annotator: match by term: Hypophosphatemic rickets
ClinVar
PMID:24033266
NCBI chr14:6,889,851...6,923,961
Ensembl chr14:6,889,856...6,900,733
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Fam20c
FAM20C, golgi associated secretory pathway kinase
ISO
RGD
PMID:22615579
RGD:11558021
NCBI chr12:17,913,771...17,972,733
Ensembl chr12:17,913,767...17,972,737
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Fgf23
fibroblast growth factor 23
ISO
RGD
PMID:14988389
RGD:10044208
NCBI chr 4:159,622,404...159,630,082
Ensembl chr 4:159,622,404...159,630,082
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Phex
phosphate regulating endopeptidase homolog, X-linked
ISO
ClinVar Annotator: match by term: HYPOPHOSPHATEMIC VITAMIN D-RESISTANT RICKETS ClinVar Annotator: match by term: Hypophosphatemia, vitamin D-resistant rickets
ClinVar
PMID:9097956 PMID:9199930 PMID:11468271 PMID:12727977 PMID:18625346 PMID:24684036 PMID:25741868 PMID:28492532 PMID:29858904
NCBI chr X:40,460,047...40,717,982
Ensembl chr X:40,460,047...40,717,982
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Phyh
phytanoyl-CoA 2-hydroxylase
ISO
ClinVar Annotator: match by term: HYPOCALCEMIC VITAMIN D-RESISTANT RICKETS
ClinVar
PMID:10767344 PMID:14974078 PMID:16186124 PMID:25741868 PMID:27229527 PMID:28492532
NCBI chr17:77,287,580...77,304,482
Ensembl chr17:77,287,188...77,304,530
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Vdr
vitamin D receptor
ISO
ClinVar Annotator: match by term: HYPOCALCEMIC VITAMIN D-RESISTANT RICKETS
ClinVar
PMID:1652893 PMID:2174914 PMID:2177843 PMID:2557627 PMID:2558018 PMID:2849209 PMID:3024987 PMID:8392085 PMID:8675579 PMID:8862631 PMID:8961271 PMID:9005998 PMID:9360557 PMID:9495519 PMID:10707958 PMID:11564167 PMID:17130574 PMID:17371163 PMID:17970811 PMID:18159135 PMID:18279374 PMID:18593774 PMID:19682379 PMID:20200114 PMID:21168462 PMID:21931507 PMID:22992668 PMID:23180655 PMID:24033266 PMID:24073221 PMID:25741868 PMID:26177022 PMID:26198224 PMID:26590811 PMID:26631034 PMID:26911666 PMID:27164139 PMID:27607899 PMID:27778467 PMID:28492532
NCBI chr 7:139,344,452...139,394,138
Ensembl chr 7:139,342,063...139,394,166
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Dmp1
dentin matrix acidic phosphoprotein 1
ISO
ClinVar Annotator: match by term: HYPOPHOSPHATEMIA, AUTOSOMAL RECESSIVE ClinVar Annotator: match by OMIM:241520
OMIM ClinVar
PMID:9536098 PMID:17033621 PMID:17033625 PMID:17576681 PMID:21050253 PMID:25741868 PMID:28492532
NCBI chr14:6,889,851...6,923,961
Ensembl chr14:6,889,856...6,900,733
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Enpp1
ectonucleotide pyrophosphatase/phosphodiesterase 1
ISO
ClinVar Annotator: match by term: Hypophosphatemic rickets, autosomal recessive, 2 ClinVar Annotator: match by OMIM:613312 DNA:missense mutation:cds:p.Y901S (human)
ClinVar OMIM
PMID:10480624 PMID:11739459 PMID:12881724 PMID:14671192 PMID:14988267 PMID:15001634 PMID:15126519 PMID:15605415 PMID:15677494 PMID:16025115 PMID:16315058 PMID:16607460 PMID:16968801 PMID:19229237 PMID:20016754 PMID:20137772 PMID:20137773 PMID:24033266 PMID:25741868 PMID:27467858 PMID:28492532 , PMID:20137773 , PMID:20137772
RGD:6906930 , RGD:6906931
NCBI chr 1:21,748,201...21,813,205
Ensembl chr 1:21,748,261...21,813,371
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Fbn1
fibrillin 1
ISO
protein:increased expression:cortical bone, trabecular bone (mouse)
RGD
PMID:11159866
RGD:7794797
NCBI chr 3:117,569,708...117,766,160
Ensembl chr 3:117,569,697...117,766,120
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Mepe
matrix extracellular phosphoglycoprotein
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:11414762
NCBI chr14:6,782,011...6,793,561
Ensembl chr14:6,782,012...6,793,558
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Pth
parathyroid hormone
ISO
associated with Kidney Failure, Chronic; protein:decreased expression:serum (human)
RGD
PMID:18480316
RGD:7242687
NCBI chr 1:178,215,829...178,218,761
Ensembl chr 1:178,215,829...178,218,761
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Cyp27b1
cytochrome P450, family 27, subfamily b, polypeptide 1
ISO
ClinVar Annotator: match by term: Vitamin D-Dependent Rickets
ClinVar
NCBI chr 7:70,333,150...70,340,006
Ensembl chr 7:70,335,061...70,340,005
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Vdr
vitamin D receptor
ISO
ClinVar Annotator: match by term: Vitamin D-Dependent Rickets
ClinVar
PMID:28492532
NCBI chr 7:139,344,452...139,394,138
Ensembl chr 7:139,342,063...139,394,166
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Cyp27b1
cytochrome P450, family 27, subfamily b, polypeptide 1
treatment
ISO IMP
ClinVar Annotator: match by term: Vitamin D-dependent rickets type 1A ClinVar Annotator: match by term: VITAMIN D-DEPENDENT RICKETS, TYPE 1A ClinVar Annotator: match by OMIM:264700
OMIM ClinVar
PMID:9415400 PMID:9486994 PMID:9837822 PMID:10518789 PMID:10566658 PMID:11737215 PMID:12050193 PMID:21700898 PMID:22190362 PMID:22443290 PMID:23423976 PMID:23444327 PMID:23483640 PMID:25284246 PMID:25741868 PMID:28492532 , PMID:32231239
RGD:32716373
NCBI chr 7:70,333,150...70,340,006
Ensembl chr 7:70,335,061...70,340,005
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Cyp27b1em1Thka
cytochrome P450, family 27, subfamily b, polypeptide 1; CRISPR/Cas9 induced mutant 1, Thka
treatment
IMP
RGD
PMID:32231239
RGD:32716373
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Cyp2r1
cytochrome P450, family 2, subfamily r, polypeptide 1
ISO
ClinVar Annotator: match by term: VITAMIN D DEPENDENCY, TYPE 1
ClinVar
PMID:8201479 PMID:10969262 PMID:15128933 PMID:16549493 PMID:24033266 PMID:25942481 PMID:28548312
NCBI chr 1:184,060,521...184,106,604
Ensembl chr 1:184,093,920...184,106,200
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Cyp2r1
cytochrome P450, family 2, subfamily r, polypeptide 1
ISO
ClinVar Annotator: match by term: Vitamin d hydroxylation-deficient rickets, type 1b
OMIM ClinVar
PMID:8201479 PMID:10969262 PMID:15128933 PMID:16549493 PMID:22855339 PMID:24033266 PMID:25741868 PMID:25942481 PMID:28548312
NCBI chr 1:184,060,521...184,106,604
Ensembl chr 1:184,093,920...184,106,200
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Phyh
phytanoyl-CoA 2-hydroxylase
ISO
ClinVar Annotator: match by term: VITAMIN D-RESISTANT RICKETS WITH END-ORGAN UNRESPONSIVENESS TO 1,25-DIHYDROXYCHOLECALCIFEROL
ClinVar
PMID:10767344 PMID:14974078 PMID:16186124 PMID:25741868 PMID:27229527 PMID:28492532
NCBI chr17:77,287,580...77,304,482
Ensembl chr17:77,287,188...77,304,530
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Vdr
vitamin D receptor
treatment
ISO IMP
ClinVar Annotator: match by term: VITAMIN D-RESISTANT RICKETS WITH END-ORGAN UNRESPONSIVENESS TO 1,25-DIHYDROXYCHOLECALCIFEROL DNA:missense mutations:cds: DNA:missense mutation:cds:P.K45E(human) DNA:missense mutations,nonsense mutation:exon,splice junction: ClinVar Annotator: match by OMIM:277440
OMIM ClinVar
PMID:1652893 PMID:2174914 PMID:2177843 PMID:2557627 PMID:2558018 PMID:2849209 PMID:3024987 PMID:8392085 PMID:8675579 PMID:8862631 PMID:8961271 PMID:9005998 PMID:9360557 PMID:9495519 PMID:10707958 PMID:11564167 PMID:17130574 PMID:17371163 PMID:17970811 PMID:18159135 PMID:18279374 PMID:18593774 PMID:19682379 PMID:20200114 PMID:21168462 PMID:21931507 PMID:22992668 PMID:23180655 PMID:24033266 PMID:24073221 PMID:25741868 PMID:26177022 PMID:26198224 PMID:26590811 PMID:26631034 PMID:26911666 PMID:27164139 PMID:27607899 PMID:27778467 PMID:28492532 , PMID:32231239 , PMID:24693968 , PMID:24859502 , PMID:25201466 , PMID:24246681 , PMID:9275211
RGD:32716373 , RGD:13432060 , RGD:13210792 , RGD:13210780 , RGD:13210778 , RGD:8158074
NCBI chr 7:139,344,452...139,394,138
Ensembl chr 7:139,342,063...139,394,166
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Vdrem1Thka
vitamin D receptor; CRISPR/Cas9 induced mutant 1, Thka
treatment
IMP
RGD
PMID:32231239
RGD:32716373
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Vdrem2Thka
vitamin D receptor; CRISPR/Cas9 induced mutant 2, Thka
treatment
IMP
compared to untreated vdr KO
RGD
PMID:32231239
RGD:32716373
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Cyp3a62
cytochrome P450, family 3, subfamily a, polypeptide 62
ISO
ClinVar Annotator: match by term: Vitamin D-dependent rickets, type 3
OMIM ClinVar
PMID:29461981
NCBI chr12:18,679,809...18,709,397
Ensembl chr12:18,678,594...18,709,397
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Bglap
bone gamma-carboxyglutamate protein
ISO
mRNA:increased expression:long bone
RGD
PMID:22573557
RGD:7207229
NCBI chr 2:187,741,770...187,748,445
Ensembl chr 2:187,741,770...187,742,747
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Fam20c
FAM20C, golgi associated secretory pathway kinase
ISO
mRNA:increased expression:long bone, osteoblast, osteocyte (mouse)
RGD
PMID:24710520
RGD:11560488
NCBI chr12:17,913,771...17,972,733
Ensembl chr12:17,913,767...17,972,737
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Phex
phosphate regulating endopeptidase homolog, X-linked
ISO
ClinVar Annotator: match by term: Familial X-linked hypophosphatemic vitamin D refractory rickets ClinVar Annotator: match by term: Hypophosphatemic Rickets, X-Linked Dominant DNA:mutation:exon:p.K496X(mouse) DNA:deletions:3'UTR,promoter,exons: DNA:mutations:cds,splice junction: DNA:deletion,mutations:exon,splice junction: ClinVar Annotator: match by OMIM:307800
OMIM ClinVar
PMID:188828 PMID:3394683 PMID:7550339 PMID:9097956 PMID:9106524 PMID:9199930 PMID:9536098 PMID:9768646 PMID:9768674 PMID:10439971 PMID:10737991 PMID:11004247 PMID:11468271 PMID:11502821 PMID:11502829 PMID:12727977 PMID:14564066 PMID:14564077 PMID:16055933 PMID:16303832 PMID:16636593 PMID:17576681 PMID:18162710 PMID:18252791 PMID:18625346 PMID:19219621 PMID:19513579 PMID:21050253 PMID:21902834 PMID:21994957 PMID:22261628 PMID:22527485 PMID:22695891 PMID:23079138 PMID:23466123 PMID:24033266 PMID:24102521 PMID:24684036 PMID:24756041 PMID:24857004 PMID:24926462 PMID:25525159 PMID:25741868 PMID:25839938 PMID:26040324 PMID:26051471 PMID:26377240 PMID:26467025 PMID:27840894 PMID:28492532 PMID:28506344 PMID:29393334 PMID:29460029 PMID:29505567 PMID:29858904 PMID:30298485 PMID:30298486 PMID:30607568 PMID:30682568 PMID:30920082 PMID:31102713 , PMID:22573557 , PMID:9063736 , PMID:9106524 , PMID:7550339
RGD:7207229 , RGD:11556248 , RGD:11556247 , RGD:11556246
NCBI chr X:40,460,047...40,717,982
Ensembl chr X:40,460,047...40,717,982
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Clcn5
chloride voltage-gated channel 5
ISO
ClinVar Annotator: match by term: X-linked recessive hypophosphatemic rickets ClinVar Annotator: match by term: Hypophosphatemic rickets, X-linked recessive
ClinVar OMIM
PMID:7915957 PMID:8559248 PMID:9187673 PMID:9734595 PMID:15086899 PMID:16822791 PMID:19546591 PMID:24081861 PMID:25741868
NCBI chr X:16,170,585...16,196,691
Ensembl chr X:16,050,780...16,196,789
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