Npc1 (NPC intracellular cholesterol transporter 1) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Npc1 (NPC intracellular cholesterol transporter 1) Rattus norvegicus
Analyze
Symbol: Npc1
Name: NPC intracellular cholesterol transporter 1
RGD ID: 628693
Description: Predicted to enable cholesterol binding activity and cholesterol transfer activity. Involved in negative regulation of epithelial cell apoptotic process and response to cadmium ion. Predicted to be located in several cellular components, including bounding membrane of organelle; membrane raft; and perinuclear region of cytoplasm. Predicted to be active in lysosome and plasma membrane. Human ortholog(s) of this gene implicated in Niemann-Pick disease type C1. Orthologous to human NPC1 (NPC intracellular cholesterol transporter 1); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 4,4'-sulfonyldiphenol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Cdig2; Niemann-Pick disease, type C1; SLC66A1; solute carrier family 66 member 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8183,654,237 - 3,699,853 (-)NCBIGRCr8
mRatBN7.2183,379,482 - 3,425,100 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl183,379,482 - 3,425,049 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx183,609,340 - 3,655,207 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0184,397,038 - 4,442,908 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0183,637,638 - 3,683,548 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0183,616,878 - 3,662,656 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl183,616,878 - 3,662,683 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0183,626,015 - 3,671,677 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4183,725,415 - 3,777,707 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1183,725,710 - 3,726,684 (-)NCBI
Celera183,239,322 - 3,285,547 (-)NCBICelera
Cytogenetic Map18p13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(25R)-cholest-5-ene-3beta,26-diol  (ISO)
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (ISO)
1,1-dichloroethene  (ISO)
17beta-estradiol  (EXP,ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-bromohexadecanoic acid  (ISO)
2-methylcholine  (ISO)
2-palmitoylglycerol  (ISO)
26-hydroxycholesterol  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (EXP,ISO)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
ammonium chloride  (EXP)
antimycin A  (ISO)
Archazolid B  (ISO)
aristolochic acid A  (ISO)
arsenous acid  (ISO)
atrazine  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
Bisphenol B  (ISO)
bisphenol F  (EXP,ISO)
Butylbenzyl phthalate  (EXP)
cadmium atom  (EXP,ISO)
cadmium dichloride  (ISO)
capsaicin  (ISO)
carbon nanotube  (ISO)
chlordecone  (ISO)
chloropicrin  (ISO)
cholesterol  (ISO)
ciglitazone  (ISO)
clobetasol  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
crocidolite asbestos  (ISO)
Cuprizon  (EXP)
cyclosporin A  (ISO)
daunorubicin  (ISO)
DDE  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
Dibutyl phosphate  (ISO)
dibutyl phthalate  (EXP)
diethyl phthalate  (EXP)
diisononyl phthalate  (EXP)
doxorubicin  (ISO)
endosulfan  (EXP)
epoxiconazole  (ISO)
ethanol  (ISO)
fenthion  (ISO)
fingolimod hydrochloride  (ISO)
fipronil  (EXP)
ganglioside GM1  (ISO)
gentamycin  (EXP)
indirubin  (ISO)
indometacin  (ISO)
iron atom  (ISO)
iron(0)  (ISO)
isotretinoin  (ISO)
ivermectin  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
methylmercury chloride  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
nitric oxide  (ISO)
nocodazole  (ISO)
ozone  (ISO)
paracetamol  (EXP,ISO)
phenobarbital  (ISO)
phenylpropanolamine  (ISO)
pirinixic acid  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
progesterone  (ISO)
resveratrol  (ISO)
rotenone  (ISO)
S-butyl-DL-homocysteine (S,R)-sulfoximine  (ISO)
serpentine asbestos  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sulforaphane  (ISO)
sulindac  (ISO)
sunitinib  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
tetrachloromethane  (EXP,ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
trichloroethene  (EXP)
trichostatin A  (ISO)
triphenyl phosphate  (ISO)
troglitazone  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
Yessotoxin  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. PCR-based subtraction analyses for upregulated gene transcription in cadmium-exposed rat lung type 2 epithelial cells. Hirano S, etal., Biochem Biophys Res Commun 2003 Aug 15;308(1):133-8.
3. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
4. GOA pipeline RGD automated data pipeline
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
7. A novel role for alpha-tocopherol transfer protein (alpha-TTP) in protecting against chloroquine toxicity. Shichiri M, etal., J Biol Chem. 2012 Jan 20;287(4):2926-34. doi: 10.1074/jbc.M111.321281. Epub 2011 Dec 6.
8. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:9211849   PMID:9927649   PMID:10787428   PMID:10821832   PMID:12554680   PMID:12719428   PMID:15078881   PMID:16141411   PMID:16757520   PMID:17148552   PMID:17468177   PMID:17897319  
PMID:18772377   PMID:19056867   PMID:19074461   PMID:19946888   PMID:20457914   PMID:21866101   PMID:21866103   PMID:21896731   PMID:22065762   PMID:22367786   PMID:23360953   PMID:27238017  
PMID:27466344   PMID:28784760   PMID:31904090   PMID:34183444  


Genomics

Comparative Map Data
Npc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8183,654,237 - 3,699,853 (-)NCBIGRCr8
mRatBN7.2183,379,482 - 3,425,100 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl183,379,482 - 3,425,049 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx183,609,340 - 3,655,207 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0184,397,038 - 4,442,908 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0183,637,638 - 3,683,548 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0183,616,878 - 3,662,656 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl183,616,878 - 3,662,683 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0183,626,015 - 3,671,677 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4183,725,415 - 3,777,707 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1183,725,710 - 3,726,684 (-)NCBI
Celera183,239,322 - 3,285,547 (-)NCBICelera
Cytogenetic Map18p13NCBI
NPC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381823,506,184 - 23,586,506 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1823,506,184 - 23,586,506 (-)EnsemblGRCh38hg38GRCh38
GRCh371821,111,406 - 21,166,470 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361819,365,461 - 19,420,468 (-)NCBINCBI36Build 36hg18NCBI36
Build 341819,365,461 - 19,420,426NCBI
Celera1817,927,454 - 17,982,730 (-)NCBICelera
Cytogenetic Map18q11.2NCBI
HuRef1817,966,414 - 18,021,712 (-)NCBIHuRef
CHM1_11821,038,743 - 21,093,877 (-)NCBICHM1_1
T2T-CHM13v2.01823,700,273 - 23,780,767 (-)NCBIT2T-CHM13v2.0
Npc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391812,322,751 - 12,369,851 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1812,322,749 - 12,369,457 (-)EnsemblGRCm39 Ensembl
GRCm381812,189,694 - 12,236,506 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1812,189,692 - 12,236,400 (-)EnsemblGRCm38mm10GRCm38
MGSCv371812,348,203 - 12,394,895 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361812,333,398 - 12,379,894 (-)NCBIMGSCv36mm8
Celera1812,423,091 - 12,469,783 (-)NCBICelera
Cytogenetic Map18A1NCBI
cM Map186.15NCBI
Npc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540211,699,434 - 11,742,899 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540211,699,434 - 11,742,899 (-)NCBIChiLan1.0ChiLan1.0
NPC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21740,962,496 - 41,017,769 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11826,655,088 - 26,710,342 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01816,783,096 - 16,838,301 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11820,409,040 - 20,463,623 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1820,409,040 - 20,463,623 (-)Ensemblpanpan1.1panPan2
NPC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1764,764,941 - 64,802,507 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl764,760,121 - 64,802,902 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha764,198,337 - 64,251,229 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0764,809,192 - 64,861,828 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl764,809,032 - 64,862,075 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1764,477,149 - 64,529,713 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0764,492,712 - 64,545,342 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0764,797,527 - 64,850,181 (+)NCBIUU_Cfam_GSD_1.0
Npc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494460,783,918 - 60,832,909 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365502,980,442 - 3,032,229 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365502,983,172 - 3,032,222 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NPC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6108,402,879 - 108,450,990 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16108,403,126 - 108,450,486 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.26101,001,696 - 101,049,542 (-)NCBISscrofa10.2Sscrofa10.2susScr3
NPC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11856,956,557 - 57,007,951 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1856,956,174 - 57,007,474 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605031,704,487 - 31,759,266 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Npc1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247708,592,457 - 8,641,843 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247708,592,473 - 8,642,063 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Npc1
514 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:492
Count of miRNA genes:260
Interacting mature miRNAs:303
Transcripts:ENSRNOT00000016167
Prediction methods:Microtar, Miranda
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9589153Insul31Insulin level QTL 317.150.05blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)18142547119Rat
2312598Bp340Blood pressure QTL 3400.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)18130558703Rat
2300180Bmd67Bone mineral density QTL 674.80.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)18134291613Rat
8552968Pigfal19Plasma insulin-like growth factor 1 level QTL 1911.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)18125758124Rat
9590248Scort10Serum corticosterone level QTL 1019.710.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)18125758124Rat
61388Bp2Blood pressure QTL 23.23arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)18135374722Rat
2293661Bss50Bone structure and strength QTL 504.640.0003lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)18134291613Rat
1641910Colcr3Colorectal carcinoma resistance QTL 35.020.000007intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)18224947722066430Rat

Markers in Region
RH127929  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2183,378,991 - 3,379,185 (+)MAPPERmRatBN7.2
Rnor_6.0183,616,390 - 3,616,583NCBIRnor6.0
Rnor_5.0183,625,527 - 3,625,720UniSTSRnor5.0
RGSC_v3.4183,724,927 - 3,725,120UniSTSRGSC3.4
Celera183,238,834 - 3,239,027UniSTS
Cytogenetic Map18p13UniSTS
RH143683  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2183,380,016 - 3,380,116 (+)MAPPERmRatBN7.2
Rnor_6.0183,617,413 - 3,617,512NCBIRnor6.0
Rnor_5.0183,626,550 - 3,626,649UniSTSRnor5.0
RGSC_v3.4183,725,950 - 3,726,049UniSTSRGSC3.4
Celera183,239,857 - 3,239,956UniSTS
RH 3.4 Map1881.1UniSTS
Cytogenetic Map18p13UniSTS
RH140621  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2183,379,522 - 3,379,703 (+)MAPPERmRatBN7.2
Rnor_6.0183,616,919 - 3,617,099NCBIRnor6.0
Rnor_5.0183,626,056 - 3,626,236UniSTSRnor5.0
RGSC_v3.4183,725,456 - 3,725,636UniSTSRGSC3.4
Celera183,239,363 - 3,239,543UniSTS
RH 3.4 Map1841.5UniSTS
Cytogenetic Map18p13UniSTS
RH136258  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2183,379,631 - 3,379,832 (+)MAPPERmRatBN7.2
Rnor_6.0183,617,028 - 3,617,228NCBIRnor6.0
Rnor_5.0183,626,165 - 3,626,365UniSTSRnor5.0
RGSC_v3.4183,725,565 - 3,725,765UniSTSRGSC3.4
Celera183,239,472 - 3,239,672UniSTS
Cytogenetic Map18p13UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000016167   ⟹   ENSRNOP00000016167
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl183,379,482 - 3,425,049 (-)Ensembl
Rnor_6.0 Ensembl183,616,878 - 3,662,683 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000092854   ⟹   ENSRNOP00000076024
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl183,644,102 - 3,662,654 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000104000   ⟹   ENSRNOP00000083725
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl183,379,482 - 3,410,430 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000107513   ⟹   ENSRNOP00000093878
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl183,379,482 - 3,420,834 (-)Ensembl
RefSeq Acc Id: NM_153624   ⟹   NP_705888
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8183,654,237 - 3,699,800 (-)NCBI
mRatBN7.2183,379,482 - 3,425,049 (-)NCBI
Rnor_6.0183,616,878 - 3,662,656 (-)NCBI
Rnor_5.0183,626,015 - 3,671,677 (-)NCBI
Celera183,239,322 - 3,285,547 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039096607   ⟹   XP_038952535
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8183,654,237 - 3,699,853 (-)NCBI
mRatBN7.2183,379,482 - 3,425,100 (-)NCBI
RefSeq Acc Id: NP_705888   ⟸   NM_153624
- Peptide Label: precursor
- UniProtKB: G3V7K5 (UniProtKB/TrEMBL),   A6KNH0 (UniProtKB/TrEMBL),   A0A8I6GB30 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000016167   ⟸   ENSRNOT00000016167
Ensembl Acc Id: ENSRNOP00000076024   ⟸   ENSRNOT00000092854
RefSeq Acc Id: XP_038952535   ⟸   XM_039096607
- Peptide Label: isoform X1
- UniProtKB: A0A8I6GB30 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000093878   ⟸   ENSRNOT00000107513
Ensembl Acc Id: ENSRNOP00000083725   ⟸   ENSRNOT00000104000
Protein Domains
SSD

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-G3V7K5-F1-model_v2 AlphaFold G3V7K5 1-1278 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13700637
Promoter ID:EPDNEW_R11161
Type:initiation region
Name:Npc1_1
Description:NPC intracellular cholesterol transporter 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0183,662,670 - 3,662,730EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:628693 AgrOrtholog
BioCyc Gene G2FUF-8367 BioCyc
Ensembl Genes ENSRNOG00000012016 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000016167 ENTREZGENE
  ENSRNOT00000016167.8 UniProtKB/TrEMBL
  ENSRNOT00000104000.1 UniProtKB/TrEMBL
  ENSRNOT00000107513.1 UniProtKB/TrEMBL
Gene3D-CATH Multidrug efflux transporter AcrB transmembrane domain UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7192371 IMAGE-MGC_LOAD
  IMAGE:7934911 IMAGE-MGC_LOAD
InterPro HMGCR/SNAP/NPC1-like_SSD UniProtKB/TrEMBL
  NP_C_type UniProtKB/TrEMBL
  NPC1_MLD UniProtKB/TrEMBL
  NPC1_N UniProtKB/TrEMBL
  Patched UniProtKB/TrEMBL
  SSD UniProtKB/TrEMBL
KEGG Report rno:266732 UniProtKB/TrEMBL
MGC_CLONE MGC:188559 IMAGE-MGC_LOAD
  MGC:93129 IMAGE-MGC_LOAD
NCBI Gene 266732 ENTREZGENE
PANTHER NPC INTRACELLULAR CHOLESTEROL TRANSPORTER 1 UniProtKB/TrEMBL
  NPC INTRACELLULAR CHOLESTEROL TRANSPORTER 1 UniProtKB/TrEMBL
Pfam NPC1_MLD UniProtKB/TrEMBL
  NPC1_N UniProtKB/TrEMBL
  Patched UniProtKB/TrEMBL
  Sterol-sensing UniProtKB/TrEMBL
PhenoGen Npc1 PhenoGen
PROSITE SSD UniProtKB/TrEMBL
RatGTEx ENSRNOG00000012016 RatGTEx
Superfamily-SCOP Multidrug efflux transporter AcrB transmembrane domain UniProtKB/TrEMBL
UniProt A0A8I6AL97_RAT UniProtKB/TrEMBL
  A0A8I6GB30 ENTREZGENE, UniProtKB/TrEMBL
  A6KNH0 ENTREZGENE, UniProtKB/TrEMBL
  G3V7K5 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-05-12 Npc1  NPC intracellular cholesterol transporter 1  Npc1  Niemann-Pick disease, type C1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-07-16 Npc1  Niemann-Pick disease, type C1  Cdig2  Cdig2 protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2003-02-27 Cdig2  Cdig2 protein      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in lung epithelial cells 632349