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Center for Computational Systems Medicine
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Protein Summary

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AS Summary

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Protein Functional Features

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Gene Isoform Structures and Expression Levels

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Protein Structures

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pLDDT Score Distribution

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Ramachandran Plot of Protein Structures

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Potential Active Site Information

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Protein Structure and Feature Comparision

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Protein-Protein Interaction

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Related Drugs

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Related Diseases

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Clinically Important Variants

Protein:NR1I2

Protein Summary

check button Gene summary
Gene name: NR1I2
ASpdb.0 ID: 8856
Gene
Gene symbol

NR1I2

Gene ID

8856

Gene namenuclear receptor subfamily 1 group I member 2
SynonymsBXR|ONR1|PAR|PAR1|PAR2|PARq|PRR|PXR|SAR|SXR
Cytomap

3q13.33

Type of geneprotein-coding
Descriptionnuclear receptor subfamily 1 group I member 2orphan nuclear receptor PAR1orphan nuclear receptor PXRpregnane X receptorsteroid and xenobiotic receptor
Modification date20240411
UniProtAcc

O75469


check button Gene ontology of this gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
GeneNR1I2

GO:0000977

RNA polymerase II transcription regulatory region sequence-specific DNA binding

11114890

GeneNR1I2

GO:0001228

DNA-binding transcription activator activity, RNA polymerase II-specific

11114890

GeneNR1I2

GO:0004879

nuclear receptor activity

12578355

GeneNR1I2

GO:0005654

nucleoplasm

-

GeneNR1I2

GO:0006355

regulation of DNA-templated transcription

9727070

GeneNR1I2

GO:0006805

xenobiotic metabolic process

12578355

GeneNR1I2

GO:0016604

nuclear body

-

GeneNR1I2

GO:0016922

nuclear receptor binding

9727070

GeneNR1I2

GO:0042178

xenobiotic catabolic process

12578355

GeneNR1I2

GO:0042908

xenobiotic transport

12578355

GeneNR1I2

GO:0045111

intermediate filament cytoskeleton

-

GeneNR1I2

GO:0045892

negative regulation of DNA-templated transcription

11891224

GeneNR1I2

GO:0045893

positive regulation of DNA-templated transcription

12578355

GeneNR1I2

GO:0045944

positive regulation of transcription by RNA polymerase II

11114890

GeneNR1I2

GO:1990837

sequence-specific double-stranded DNA binding

28473536



AS Summary

check button Information of the canonical protein with experimentally identified structure from PDB (2023).
UniProt AccFile namePDB IDMethodResolutionChainStartEnd
O75469-1O75469-1_7axe_A.pdb7AXEX-ray1.9A140434

check button ASpdb's canonical and alternatively spliced isoform information.
accession_idgene_namecanonical_idalternative_idcanonical_lengthalternative_lengthcanonical_startcanonical_endtypeoriginalSEQvariationSEQalternative_startalternative_end
O75469NR1I2O75469-1O75469-2434379155Deletionnonenone00
O75469NR1I2O75469-1O75469-343445711SubstitutionMMDPRGEVGAKNLPPNSPRGPEANL124
O75469NR1I2O75469-1O75469-4434397174210Deletionnonenone173173
O75469NR1I2O75469-1O75469-5434342155Deletionnonenone00
O75469NR1I2O75469-1O75469-5434342174210Deletionnonenone118118
O75469NR1I2O75469-1O75469-643442011SubstitutionMMDPRGEVGAKNLPPNSPRGPEANL124
O75469NR1I2O75469-1O75469-6434420174210Deletionnonenone196196
O75469NR1I2O75469-1O75469-743447311SubstitutionMMTVTRTHHFKEGSLRAPAIPLHSAAAELASNHPRGPEANL140

check buttonMultiple sequence alignment of our canonical and alternatively spliced NR1I2

check button Matched gene isoform IDs with Ensembl and RefSeq of our canonical and alternative spliced genes of NR1I2
UniProt-idENSGENSTENSP
O75469-1ENSG00000144852.20ENST00000393716.8ENSP00000377319.3
O75469-4ENSG00000144852.20ENST00000466380.6ENSP00000420297.2
O75469-7ENSG00000144852.20ENST00000337940.4ENSP00000336528.4

UniProt-idNM IDNP ID
O75469-1NM_003889.3NP_003880.3
O75469-4NM_033013.2NP_148934.1
O75469-7NM_022002.2NP_071285.1

check buttonAmino acid sequences of our canonical and alternatively spliced NR1I2
accession_idProtein sequence
O75469-1MEVRPKESWNHADFVHCEDTESVPGKPSVNADEEVGGPQICRVCGDKATGYHFNVMTCEGCKGFFRRAMKRNARLRCPFRKGACEITRKT
RRQCQACRLRKCLESGMKKEMIMSDEAVEERRALIKRKKSERTGTQPLGVQGLTEEQRMMIRELMDAQMKTFDTTFSHFKNFRLPGVLSS
GCELPESLQAPSREEAAKWSQVRKDLCSLKVSLQLRGEDGSVWNYKPPADSGGKEIFSLLPHMADMSTYMFKGIISFAKVISYFRDLPIE
DQISLLKGAAFELCQLRFNTVFNAETGTWECGRLSYCLEDTAGGFQQLLLEPMLKFHYMLKKLQLHEEEYVLMQAISLFSPDRPGVLQHR
O75469-2MTCEGCKGFFRRAMKRNARLRCPFRKGACEITRKTRRQCQACRLRKCLESGMKKEMIMSDEAVEERRALIKRKKSERTGTQPLGVQGLTE
EQRMMIRELMDAQMKTFDTTFSHFKNFRLPGVLSSGCELPESLQAPSREEAAKWSQVRKDLCSLKVSLQLRGEDGSVWNYKPPADSGGKE
IFSLLPHMADMSTYMFKGIISFAKVISYFRDLPIEDQISLLKGAAFELCQLRFNTVFNAETGTWECGRLSYCLEDTAGGFQQLLLEPMLK
FHYMLKKLQLHEEEYVLMQAISLFSPDRPGVLQHRVVDQLQEQFAITLKSYIECNRPQPAHRFLFLKIMAMLTELRSINAQHTQRLLRIQ
O75469-3MDPRGEVGAKNLPPNSPRGPEANLEVRPKESWNHADFVHCEDTESVPGKPSVNADEEVGGPQICRVCGDKATGYHFNVMTCEGCKGFFRR
AMKRNARLRCPFRKGACEITRKTRRQCQACRLRKCLESGMKKEMIMSDEAVEERRALIKRKKSERTGTQPLGVQGLTEEQRMMIRELMDA
QMKTFDTTFSHFKNFRLPGVLSSGCELPESLQAPSREEAAKWSQVRKDLCSLKVSLQLRGEDGSVWNYKPPADSGGKEIFSLLPHMADMS
TYMFKGIISFAKVISYFRDLPIEDQISLLKGAAFELCQLRFNTVFNAETGTWECGRLSYCLEDTAGGFQQLLLEPMLKFHYMLKKLQLHE
EEYVLMQAISLFSPDRPGVLQHRVVDQLQEQFAITLKSYIECNRPQPAHRFLFLKIMAMLTELRSINAQHTQRLLRIQDIHPFATPLMQE
O75469-4MEVRPKESWNHADFVHCEDTESVPGKPSVNADEEVGGPQICRVCGDKATGYHFNVMTCEGCKGFFRRAMKRNARLRCPFRKGACEITRKT
RRQCQACRLRKCLESGMKKEMIMSDEAVEERRALIKRKKSERTGTQPLGVQGLTEEQRMMIRELMDAQMKTFDTTFSHFKNFRVSLQLRG
EDGSVWNYKPPADSGGKEIFSLLPHMADMSTYMFKGIISFAKVISYFRDLPIEDQISLLKGAAFELCQLRFNTVFNAETGTWECGRLSYC
LEDTAGGFQQLLLEPMLKFHYMLKKLQLHEEEYVLMQAISLFSPDRPGVLQHRVVDQLQEQFAITLKSYIECNRPQPAHRFLFLKIMAML
O75469-5MTCEGCKGFFRRAMKRNARLRCPFRKGACEITRKTRRQCQACRLRKCLESGMKKEMIMSDEAVEERRALIKRKKSERTGTQPLGVQGLTE
EQRMMIRELMDAQMKTFDTTFSHFKNFRVSLQLRGEDGSVWNYKPPADSGGKEIFSLLPHMADMSTYMFKGIISFAKVISYFRDLPIEDQ
ISLLKGAAFELCQLRFNTVFNAETGTWECGRLSYCLEDTAGGFQQLLLEPMLKFHYMLKKLQLHEEEYVLMQAISLFSPDRPGVLQHRVV
O75469-6MDPRGEVGAKNLPPNSPRGPEANLEVRPKESWNHADFVHCEDTESVPGKPSVNADEEVGGPQICRVCGDKATGYHFNVMTCEGCKGFFRR
AMKRNARLRCPFRKGACEITRKTRRQCQACRLRKCLESGMKKEMIMSDEAVEERRALIKRKKSERTGTQPLGVQGLTEEQRMMIRELMDA
QMKTFDTTFSHFKNFRVSLQLRGEDGSVWNYKPPADSGGKEIFSLLPHMADMSTYMFKGIISFAKVISYFRDLPIEDQISLLKGAAFELC
QLRFNTVFNAETGTWECGRLSYCLEDTAGGFQQLLLEPMLKFHYMLKKLQLHEEEYVLMQAISLFSPDRPGVLQHRVVDQLQEQFAITLK
O75469-7MTVTRTHHFKEGSLRAPAIPLHSAAAELASNHPRGPEANLEVRPKESWNHADFVHCEDTESVPGKPSVNADEEVGGPQICRVCGDKATGY
HFNVMTCEGCKGFFRRAMKRNARLRCPFRKGACEITRKTRRQCQACRLRKCLESGMKKEMIMSDEAVEERRALIKRKKSERTGTQPLGVQ
GLTEEQRMMIRELMDAQMKTFDTTFSHFKNFRLPGVLSSGCELPESLQAPSREEAAKWSQVRKDLCSLKVSLQLRGEDGSVWNYKPPADS
GGKEIFSLLPHMADMSTYMFKGIISFAKVISYFRDLPIEDQISLLKGAAFELCQLRFNTVFNAETGTWECGRLSYCLEDTAGGFQQLLLE
PMLKFHYMLKKLQLHEEEYVLMQAISLFSPDRPGVLQHRVVDQLQEQFAITLKSYIECNRPQPAHRFLFLKIMAMLTELRSINAQHTQRL

Protein Functional Features

check buttonMain function of this protein. (from UniProt)
NR1I2 (go to UniProt):O75469

check buttonRetention analysis result of protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at

download page

* Minus value of BPloci means that the break pointn is located before the CDS.
- Retained protein feature among the 13 regional features.
Accession_idSubsectionStartEndFuncitonal featureSplicing information
O75469Domain146433Note=NR LBD;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU01189Type=Deletion;Start=174;End=210
O75469Domain146433Note=NR LBD;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU01189Type=Deletion;Start=174;End=210
O75469Domain146433Note=NR LBD;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU01189Type=Deletion;Start=174;End=210
O75469DNA binding38107Note=Nuclear receptor;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00407Type=Deletion;Start=1;End=55
O75469DNA binding38107Note=Nuclear receptor;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00407Type=Deletion;Start=1;End=55
O75469Zinc finger4161Note=NR C4-type;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00407Type=Deletion;Start=1;End=55
O75469Zinc finger4161Note=NR C4-type;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00407Type=Deletion;Start=1;End=55


Gene Isoform Structures and Expression Levels for NR1I2

check buttonGene structures of our canonical and alternative spliced genes of NR1I2
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
gene isoform structure of NR1I2

check button Expression levels of gene isoforms across GTEx.
gtex expression

check button Expression levels of gene isoforms across TCGA.
tcga expression


Protein Structures

check button PDB and CIF files of the predicted protein structures
* Here we show the 3D structure of the proteins using Mol*. AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Model confidence is shown from the pLDDT values per residue. pLDDT corresponds to the model’s prediction of its score on the local Distance Difference Test. It is a measure of local accuracy (from AlphfaFold website). To color code individual residues, we transformed individual PDB files into CIF format.
3D view using mol* of O75469-1
3D view using mol* of O75469-2
3D view using mol* of O75469-3
3D view using mol* of O75469-4
3D view using mol* of O75469-5
3D view using mol* of O75469-6
3D view using mol* of O75469-7


pLDDT Score Distribution

check button pLDDT score distribution of the predicted protein structures from AlphaFold2
* AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100.
pLDDT distribution across the protein length of O75469-1
all structure
pLDDT distribution across the protein length of O75469-2
all structure
pLDDT distribution across the protein length of O75469-3
all structure
pLDDT distribution across the protein length of O75469-4
all structure
pLDDT distribution across the protein length of O75469-5
all structure
pLDDT distribution across the protein length of O75469-6
all structure
pLDDT distribution across the protein length of O75469-7
all structure


Ramachandran Plot of Protein Structures


check button Ramachandran plot of the torsional angles - phi (φ)and psi (ψ) - of the residues (amino acids) contained in this protein peptide.
Ramachandran plot of O75469-1
all structure
Ramachandran plot of O75469-3
all structure
Ramachandran plot of O75469-4
all structure
Ramachandran plot of O75469-7
all structure

Potential Active Site Information


check button The potential binding sites of these proteins were identified using SiteMap, a module of the Schrodinger suite.
UniProt-idSite scoreSizeD scoreVolumeExposureEnclosureContactPhobicPhilicBalanceDon/AccResidues
O75469-11.2042051.233399.9380.3190.9441.2162.2760.842.7111.055203,205,206,207,208,209,210,211,225,227,228,230,23
5,236,237,238,239,240,243,244,246,247,251,281,284,
285,288,299,306,321,323,324,327,407,410,411,414,42
0,425
O75469-21.2071811.248474.0260.3740.9261.1682.2420.7612.9450.861114,148,151,153,154,155,156,172,180,181,184,185,18
8,191,192,196,226,229,230,233,244,246,251,253,266,
267,268,272,348,351,352,355,356,359,365,370,374
O75469-31.2231851.278498.0360.4360.921.1512.5030.6553.820.913225,226,228,229,231,232,233,234,250,258,259,262,26
3,266,269,270,274,304,307,308,311,322,329,331,344,
346,350,430,433,434,437,443,448
O75469-41.0933451.154795.760.4870.740.9541.4760.7052.0940.6175,177,188,190,191,193,194,195,197,198,199,200,20
1,202,203,205,206,209,210,214,244,247,248,251,262,
264,268,269,270,271,273,274,275,278,279,282,283,28
5,286,290,366,370,373,374,376,377,380,381,383,388

O75469-51.1491841.182384.5030.4510.8671.0561.730.8522.030.95117,119,120,121,147,148,150,151,152,154,155,159,18
9,192,193,196,207,212,213,214,215,216,218,219,220,
224,227,228,231,232,235,315,319,322,328,333
O75469-61.0782991.121619.8010.5050.7560.9161.2120.8361.451.135195,197,198,199,200,201,202,209,210,211,213,214,21
5,216,217,218,219,221,222,224,225,226,228,229,230,
232,233,237,267,270,271,274,285,287,290,291,292,29
3,294,296,297,298,299,302,305,306,309,313,393,397,
406,411
O75469-71.2031941.246494.9490.3380.9191.1772.3110.7533.0681.013242,245,246,248,249,250,264,266,274,275,278,279,28
2,285,286,289,290,320,323,324,327,338,340,345,347,
360,362,366,446,449,450,453,459,464

Protein Structure and Feature Comparision


check button Protein Structure Comparision Using Template Modeling Scores (TM-score).
all structure

check button Protein Structure Comparision Visualization with mol*. between Canonical predicted structure (AF2)(orange) vs Canonical validated structure (PDB)(green)
3D view using mol* of O75469-1_O75469-1_7axe_A.pdb

check button Protein Structure Comparision Visualization with mol*. between Canonical validated structure (PDB)(orange) vs Alternative predicted structure (AF2)(green)
3D view using mol* of O75469-1_7axe_A_O75469-2.pdb
3D view using mol* of O75469-1_7axe_A_O75469-3.pdb
3D view using mol* of O75469-1_7axe_A_O75469-4.pdb
3D view using mol* of O75469-1_7axe_A_O75469-5.pdb
3D view using mol* of O75469-1_7axe_A_O75469-6.pdb
3D view using mol* of O75469-1_7axe_A_O75469-7.pdb

check button Protein Structure Comparision Visualization with mol*. between Canonical predicted structure (AF2)(orange) vs Alternative predicted structure (AF2)(green)
3D view using mol* of O75469-1_O75469-2.pdb
3D view using mol* of O75469-1_O75469-3.pdb
3D view using mol* of O75469-1_O75469-4.pdb
3D view using mol* of O75469-1_O75469-5.pdb
3D view using mol* of O75469-1_O75469-6.pdb
3D view using mol* of O75469-1_O75469-7.pdb

check button Protein Feature Comparison of the protein sequendary structures among the protiens.
./stats/secondary_structure/figure/O75469-1_vs_O75469-2.png
all structure<
./stats/secondary_structure/figure/O75469-1_vs_O75469-3.png
all structure<
./stats/secondary_structure/figure/O75469-1_vs_O75469-4.png
all structure<
./stats/secondary_structure/figure/O75469-1_vs_O75469-5.png
all structure<
./stats/secondary_structure/figure/O75469-1_vs_O75469-6.png
all structure<
./stats/secondary_structure/figure/O75469-1_vs_O75469-7.png
all structure<

check button Protein Feature Comparison of the relative accessible surface area (ASA) among the protiens.
./stats/relative_asa/O75469-1_vs_O75469-2.png
all structure<
./stats/relative_asa/O75469-1_vs_O75469-3.png
all structure<
./stats/relative_asa/O75469-1_vs_O75469-4.png
all structure<
./stats/relative_asa/O75469-1_vs_O75469-5.png
all structure<
./stats/relative_asa/O75469-1_vs_O75469-6.png
all structure<
./stats/relative_asa/O75469-1_vs_O75469-7.png
all structure<


Protein-Protein Interaction


check button Interactors from UniProt.
Accession_idSubsectionStartEndFuncitonal featureSplicing information


check button Interactors from STRING.
Gene nameInteractors


Related Drugs to NR1I2


check button Drugs targeting this gene/protein.
(DrugBank)
UniProt accessionGene nameDrugBank IDDrug nameDrug groupActions
O75469NR1I2DB00255Diethylstilbestrolapproved, investigational, withdrawn
O75469NR1I2DB00257Clotrimazoleapproved, vet_approvedactivator
O75469NR1I2DB02709Resveratrolinvestigational
O75469NR1I2DB00783Estradiolapproved, investigational, vet_approvedbinder
O75469NR1I2DB01645Genisteininvestigational
O75469NR1I2DB00834Mifepristoneapproved, investigational
O75469NR1I2DB00163Vitamin Eapproved, nutraceutical, vet_approved
O75469NR1I2DB00239Oxiconazoleapprovedpartial agonist
O75469NR1I2DB00849Methylphenobarbitalapprovedactivator
O75469NR1I2DB00675Tamoxifenapproved
O75469NR1I2DB00682Warfarinapproved
O75469NR1I2DB01892Hyperforinnutraceutical
O75469NR1I2DB00754Ethotoinapprovedactivator
O75469NR1I2DB04216Quercetinexperimental, investigationalactivator
O75469NR1I2DB01708Prasteroneapproved, investigational, nutraceuticalactivator
O75469NR1I2DB08604Triclosanapproved, investigational
O75469NR1I2DB04824Phenolphthaleinapproved, withdrawn
O75469NR1I2DB14649Dexamethasone acetateapproved, investigational, vet_approvedagonist
O75469NR1I2DB00312Pentobarbitalapproved, investigational, vet_approvedactivator
O75469NR1I2DB04466SR12813experimental
O75469NR1I2DB11087Pyrethrum extractapproved
O75469NR1I2DB04468Afimoxifeneinvestigational
O75469NR1I2DB08864Rilpivirineapprovedagonist
O75469NR1I2DB04930Permethrinapproved, investigational
O75469NR1I2DB01181Ifosfamideapproved
O75469NR1I2DB14001alpha-Tocopherol succinateapproved, nutraceutical, vet_approved
O75469NR1I2DB07080TO-901317experimental
O75469NR1I2DB01026Ketoconazoleapproved, investigationalantagonist
O75469NR1I2DB00499Flutamideapproved, investigational
O75469NR1I2DB01220Rifaximinapproved, investigationalagonist
O75469NR1I2DB00564Carbamazepineapproved, investigationalactivator
O75469NR1I2DB13956Estradiol valerateapproved, investigational, vet_approved
O75469NR1I2DB13955Estradiol dienanthateapproved, investigational, vet_approved
O75469NR1I2DB13954Estradiol cypionateapproved, investigational, vet_approved
O75469NR1I2DB13953Estradiol benzoateapproved, investigational, vet_approved
O75469NR1I2DB00531Cyclophosphamideapproved, investigational
O75469NR1I2DB13952Estradiol acetateapproved, investigational, vet_approved
O75469NR1I2DB01174Phenobarbitalapproved, investigationalactivator
O75469NR1I2DB13873Fenofibric acidapprovedpartial agonist
O75469NR1I2DB12582Piperineinvestigational
O75469NR1I2DB00977Ethinylestradiolapprovedagonist
O75469NR1I2DB06777Chenodeoxycholic acidapproved
O75469NR1I2DB13179Troleandomycinapprovedactivator
O75469NR1I2DB01138Sulfinpyrazoneapprovedactivator
O75469NR1I2DB00431Lindaneapproved, withdrawn
O75469NR1I2DB00532Mephenytoinapproved, investigational, withdrawnactivator
O75469NR1I2DB00530Erlotinibapproved, investigationalagonist
O75469NR1I2DB01127Econazoleapprovedpartial agonist
O75469NR1I2DB02789Pregnenoloneapproved, experimental
O75469NR1I2DB01110Miconazoleapproved, investigational, vet_approvedpartial agonist
O75469NR1I2DB01068Clonazepamapproved, illicitpartial agonist
O75469NR1I2DB01393Bezafibrateapproved, investigationalpartial agonist
O75469NR1I2DB11605Myrrhapprovedpartial agonist
O75469NR1I2DB00503Ritonavirapproved, investigationalactivator
O75469NR1I2DB00252Phenytoinapproved, vet_approved
O75469NR1I2DB07931Hexestrolwithdrawn
O75469NR1I2DB01115Nifedipineapprovedagonist
O75469NR1I2DB01045Rifampicinapprovedagonist
O75469NR1I2DB14002D-alpha-Tocopherol acetateapproved, nutraceutical, vet_approved
O75469NR1I2DB01039Fenofibrateapprovedpartial agonist
O75469NR1I2DB01248Docetaxelapproved, investigationalbinder
O75469NR1I2DB05928Dovitinibinvestigationalsuppressor
O75469NR1I2DB01234Dexamethasoneapproved, investigational, vet_approvedagonist
O75469NR1I2DB00421Spironolactoneapprovedagonist
O75469NR1I2DB01229Paclitaxelapproved, vet_approvedinducer

Related Diseases to NR1I2


check button Previous studies relating to the alternative splicing of NR1I2 and disease information from the MeSH term (PubMed)
GenePMIDTitleAbstractMeSH IDMeSH term


Clinically important variants in NR1I2


check button (ClinVar, 04/20/2024)
accession_iduniprot_idgene_nameTypeVariantClinical_significance