Abcd3 (ATP binding cassette subfamily D member 3) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Abcd3 (ATP binding cassette subfamily D member 3) Rattus norvegicus
Analyze
Symbol: Abcd3
Name: ATP binding cassette subfamily D member 3
RGD ID: 2007
Description: Enables ATP binding activity and protein self-association. Involved in response to organic cyclic compound and response to xenobiotic stimulus. Located in mitochondrion and peroxisomal membrane. Human ortholog(s) of this gene implicated in Zellweger syndrome and congenital bile acid synthesis defect 5. Orthologous to human ABCD3 (ATP binding cassette subfamily D member 3); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 3H-1,2-dithiole-3-thione.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 70 kDa peroxisomal membrane protein; 70-kDa peroxisomal membrane protein; ATP-binding cassette sub-family D member 3; ATP-binding cassette, sub-family D (ALD), member 3; ATP-binding cassette, subfamily D (ALD), member 3; Peroxisomal membrane protein 1; PMP70; PMP70, 70-kDa peroxisomal membrane protein; Pxmp1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82212,536,791 - 212,590,379 (-)NCBIGRCr8
mRatBN7.22209,852,087 - 209,905,763 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2209,852,087 - 209,906,020 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2217,515,099 - 217,568,654 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02215,422,840 - 215,476,397 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02210,264,674 - 210,318,230 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02225,335,708 - 225,389,120 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2225,335,718 - 225,389,120 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02243,374,189 - 243,409,604 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42218,396,071 - 218,432,172 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12218,359,132 - 218,395,230 (-)NCBI
Celera2202,282,471 - 202,317,962 (-)NCBICelera
RH 3.4 Map21501.0RGD
Cytogenetic Map2q42NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (ISO)
(+)-schisandrin B  (EXP)
(-)-epigallocatechin 3-gallate  (ISO)
(R,R,R)-alpha-tocopherol  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-hydroxypropanoic acid  (ISO)
2-palmitoylglycerol  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-sulfonyldiphenol  (ISO)
7-ketocholesterol  (ISO)
9-cis-retinoic acid  (EXP)
acetamide  (EXP)
acrylamide  (EXP)
aflatoxin B1  (ISO)
aflatoxin M1  (ISO)
aldrin  (ISO)
all-trans-retinoic acid  (EXP,ISO)
amiodarone  (ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
arachidonic acid  (ISO)
aristolochic acid A  (ISO)
Aroclor 1254  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (EXP)
bexarotene  (EXP)
bezafibrate  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
calcitriol  (ISO)
carbon nanotube  (ISO)
chloroethene  (ISO)
clofibrate  (EXP,ISO)
clofibric acid  (ISO)
clothianidin  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
cyclosporin A  (ISO)
dibenz[a,h]anthracene  (EXP)
dibenzo[a,l]pyrene  (EXP)
dichloroacetic acid  (ISO)
dicrotophos  (ISO)
dorsomorphin  (ISO)
endosulfan  (EXP)
enilconazole  (ISO)
epoxiconazole  (ISO)
fenofibrate  (ISO)
finasteride  (EXP)
fluoranthene  (EXP)
folic acid  (ISO)
fomesafen  (ISO)
formaldehyde  (ISO)
FR900359  (ISO)
furan  (EXP)
gentamycin  (EXP)
glafenine  (EXP)
indole-3-methanol  (EXP)
indometacin  (EXP)
ivermectin  (ISO)
leflunomide  (ISO)
MeIQx  (ISO)
methamphetamine  (ISO)
methapyrilene  (EXP)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
Muraglitazar  (EXP)
nickel atom  (ISO)
oleic acid  (ISO)
Oxyfluorfen  (ISO)
ozone  (ISO)
paracetamol  (ISO)
perfluorooctane-1-sulfonic acid  (EXP,ISO)
perfluorooctanoic acid  (EXP,ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
piroxicam  (ISO)
potassium chromate  (ISO)
pravastatin  (ISO)
progesterone  (ISO)
propiconazole  (ISO)
quercetin  (ISO)
rac-lactic acid  (ISO)
resveratrol  (ISO)
rotenone  (EXP)
sarin  (ISO)
SB 431542  (ISO)
sirolimus  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (ISO)
sulindac  (EXP)
tamoxifen  (ISO)
temozolomide  (ISO)
Tesaglitazar  (EXP)
testosterone  (ISO)
tetrachloroethene  (ISO)
tetrachloromethane  (EXP,ISO)
tetracycline  (ISO)
thioacetamide  (EXP)
topotecan  (ISO)
triacsin C  (ISO)
trichloroethene  (EXP)
trichostatin A  (ISO)
triclosan  (ISO)
triptonide  (ISO)
troglitazone  (EXP)
valproic acid  (ISO)
vincristine  (ISO)
vorinostat  (ISO)
zaragozic acid A  (EXP,ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Fenofibrate differently alters expression of genes encoding ATP-binding transporter proteins of the peroxisomal membrane. Albet S, etal., FEBS Lett. 1997 Apr 1;405(3):394-7.
2. Restoration of peroxisome biogenesis in a peroxisome-deficient mammalian cell line by expression of either the 35 kDa or the 70 kDa peroxisomal membrane proteins. Gartner J, etal., J Inherit Metab Dis 1994;17(3):327-9.
3. Mutations in the 70K peroxisomal membrane protein gene in Zellweger syndrome. Gartner J, etal., Nat Genet. 1992 Apr;1(1):16-23.
4. 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.
5. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
6. The 70-kDa peroxisomal membrane protein is a member of the Mdr (P-glycoprotein)-related ATP-binding protein superfamily. Kamijo K, etal., J Biol Chem 1990 Mar 15;265(8):4534-40.
7. Nucleotide-induced conformational changes of PMP70, an ATP binding cassette transporter on rat liver peroxisomal membranes. Kashiwayama Y, etal., Biochem Biophys Res Commun 2002 Mar 15;291(5):1245-51.
8. 70-kDa peroxisomal membrane protein related protein (P70R/ABCD4) localizes to endoplasmic reticulum not peroxisomes, and NH2-terminal hydrophobic property determines the subcellular localization of ABC subfamily D proteins. Kashiwayama Y, etal., Exp Cell Res. 2009 Jan 15;315(2):190-205. doi: 10.1016/j.yexcr.2008.10.031. Epub 2008 Nov 3.
9. Proteomic analysis of rat liver peroxisome: presence of peroxisome-specific isozyme of Lon protease. Kikuchi M, etal., J Biol Chem. 2004 Jan 2;279(1):421-8. Epub 2003 Oct 15.
10. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
11. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
12. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
13. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
14. RefSeq and LocusLink: NCBI gene-centered resources Pruitt KD and Maglott DR, Nucleic Acids Res. 2001 Jan 1;29(1):137-40.
15. Identification of a 24 kDa intrinsic membrane protein from mammalian peroxisomes. Reguenga C, etal., Biochim Biophys Acta. 1999 Jun 9;1445(3):337-41.
16. GOA pipeline RGD automated data pipeline
17. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
18. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
19. ATP binding/hydrolysis by and phosphorylation of peroxisomal ATP-binding cassette proteins PMP70 (ABCD3) and adrenoleukodystrophy protein (ABCD1). Tanaka AR, etal., J Biol Chem. 2002 Oct 18;277(42):40142-7. Epub 2002 Aug 9.
20. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
21. Differential induction of peroxisomal populations in subcellular fractions of rat liver. Wilcke M and Alexson SE, Biochim Biophys Acta. 2001 Jan 12;1544(1-2):358-69.
Additional References at PubMed
PMID:9425230   PMID:9765053   PMID:9922452   PMID:10527525   PMID:10704444   PMID:11248239   PMID:11453642   PMID:12865426   PMID:12915479   PMID:14651853   PMID:16344115   PMID:17542813  
PMID:17609205   PMID:18178290   PMID:18614015   PMID:18992293   PMID:19479899   PMID:19686593   PMID:19946888   PMID:20007743   PMID:21460186   PMID:21502359   PMID:21525035   PMID:22871113  
PMID:25168382   PMID:31505169  


Genomics

Comparative Map Data
Abcd3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82212,536,791 - 212,590,379 (-)NCBIGRCr8
mRatBN7.22209,852,087 - 209,905,763 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2209,852,087 - 209,906,020 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2217,515,099 - 217,568,654 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02215,422,840 - 215,476,397 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02210,264,674 - 210,318,230 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02225,335,708 - 225,389,120 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2225,335,718 - 225,389,120 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02243,374,189 - 243,409,604 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42218,396,071 - 218,432,172 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12218,359,132 - 218,395,230 (-)NCBI
Celera2202,282,471 - 202,317,962 (-)NCBICelera
RH 3.4 Map21501.0RGD
Cytogenetic Map2q42NCBI
ABCD3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38194,385,131 - 94,518,663 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl194,418,389 - 94,518,666 (+)EnsemblGRCh38hg38GRCh38
GRCh37194,883,945 - 94,984,219 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36194,656,599 - 94,756,672 (+)NCBINCBI36Build 36hg18NCBI36
Build 34194,596,031 - 94,696,105NCBI
Celera193,137,599 - 93,238,680 (+)NCBICelera
Cytogenetic Map1p21.3ENTREZGENE
HuRef193,005,619 - 93,105,917 (+)NCBIHuRef
CHM1_1194,998,783 - 95,099,070 (+)NCBICHM1_1
T2T-CHM13v2.0194,233,380 - 94,366,700 (+)NCBIT2T-CHM13v2.0
Abcd3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393121,552,553 - 121,609,851 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl3121,552,423 - 121,608,951 (-)EnsemblGRCm39 Ensembl
GRCm383121,758,904 - 121,815,302 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3121,758,774 - 121,815,302 (-)EnsemblGRCm38mm10GRCm38
MGSCv373121,461,828 - 121,518,133 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv363121,750,933 - 121,807,238 (-)NCBIMGSCv36mm8
Celera3128,155,294 - 128,218,276 (-)NCBICelera
Cytogenetic Map3G1NCBI
cM Map352.94NCBI
Abcd3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955423280,497 - 359,711 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955423280,497 - 359,711 (-)NCBIChiLan1.0ChiLan1.0
ABCD3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21132,505,970 - 132,606,599 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11131,660,847 - 131,761,306 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0197,079,326 - 97,179,886 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1195,808,027 - 95,907,864 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl195,808,027 - 95,907,864 (+)Ensemblpanpan1.1panPan2
ABCD3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1654,740,704 - 54,816,854 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl654,742,111 - 54,817,235 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha657,449,009 - 57,525,742 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0655,116,365 - 55,193,330 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl655,116,488 - 55,193,330 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1654,797,137 - 54,873,570 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0654,781,385 - 54,858,240 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0655,234,335 - 55,310,979 (-)NCBIUU_Cfam_GSD_1.0
Abcd3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405058104,201,915 - 104,288,290 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365374,659,484 - 4,746,616 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365374,659,685 - 4,745,992 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ABCD3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl4122,847,927 - 122,953,257 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.14122,847,925 - 122,929,454 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24134,491,144 - 134,572,292 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ABCD3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12038,750,147 - 38,846,011 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2038,748,787 - 38,845,989 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603379,200,937 - 79,302,556 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Abcd3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247423,142,570 - 3,236,728 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247423,146,000 - 3,236,473 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Abcd3
253 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:537
Count of miRNA genes:263
Interacting mature miRNAs:318
Transcripts:ENSRNOT00000016739
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61366Iddm3Insulin dependent diabetes mellitus QTL 34.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2189599258234599258Rat
61398Bp50Blood pressure QTL 504.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2189599258234599258Rat
61417Cia10Collagen induced arthritis QTL 103.4joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)2179946951224946951Rat
631203Gluco14Glucose level QTL 140.0001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)2206665645219003804Rat
61458Bp10Blood pressure QTL 103.42arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2189020722215287351Rat
61469Bp16Blood pressure QTL 165.64arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)2169745596214745596Rat
70162Bp63Blood pressure QTL 635.64arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)2169745596214745596Rat
724534Uae6Urinary albumin excretion QTL 610urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)278665619249053267Rat
724568Uae13Urinary albumin excretion QTL 134.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)2143157029210020885Rat
1298083Bp158Blood pressure QTL 1582.62arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2189020722215287351Rat
738013Alc15Alcohol consumption QTL 154.10.00022consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)2184165752229165752Rat
631507Bp105Blood pressure QTL 1050.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2112456140212696837Rat
634308Sach6Saccharin preference QTL 64.9taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)2112456140212696837Rat
1358356Srcrt1Stress Responsive Cort QTL13.66blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)2161699179222436696Rat
1331734Bp204Blood pressure QTL 2043.61192arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2168358098223265385Rat
1331745Bp203Blood pressure QTL 2034.377arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2189599258218414891Rat
1331794Bp202Blood pressure QTL 2023.66819arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2141194931223265385Rat
1331805Cm29Cardiac mass QTL 293.50746heart mass (VT:0007028)heart wet weight (CMO:0000069)2141194931223265385Rat
1354622Kidm16Kidney mass QTL 163kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)281754530222436696Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118463226797303Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)281754530227146641Rat
1359022Ppulsi1Prepulse inhibition QTL 13.63prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)2136916935213594495Rat
1554319Bmd2Bone mineral density QTL 213.40.0001lumbar vertebra area (VT:0010570)lumbar vertebra cross-sectional area (CMO:0001689)2114837675212549332Rat
1358900Bw48Body weight QTL 484.88body mass (VT:0001259)body weight (CMO:0000012)2157142078211086598Rat
1359031Bp275Blood pressure QTL 275arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2185876309219753474Rat
1359031Bp275Blood pressure QTL 275arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2185876309219753474Rat
1581499Esta2Estrogen-induced thymic atrophy QTL 2thymus mass (VT:0004954)thymus wet weight (CMO:0000855)2189599258226936289Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561249053267Rat
1641925Alcrsp2Alcohol response QTL 2response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561221167075Rat
1581569Uae32Urinary albumin excretion QTL 320.0001urine protein amount (VT:0005160)urine albumin excretion rate (CMO:0000757)278665619219826953Rat
1598813Memor9Memory QTL 92.7exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)2199341726234244620Rat
1598835Anxrr18Anxiety related response QTL 182.98body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)2200990457245990457Rat
1598838Bp290Blood pressure QTL 2901.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2166539266211539266Rat
1578648Bss11Bone structure and strength QTL 114.7femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)2114837527211674221Rat
2293084Iddm26Insulin dependent diabetes mellitus QTL 262.9blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2174930955213594495Rat
2301408Kidm36Kidney mass QTL 360.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2190613715226808892Rat
2298479Eau5Experimental allergic uveoretinitis QTL 50.0021uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)2202446871237938339Rat
2300189Bmd48Bone mineral density QTL 485.80.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)2179335906224335906Rat
2299161Iddm33Insulin dependent diabetes mellitus QTL 332.98blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)2206312063220876787Rat
2306901Bp337Blood pressure QTL 3370.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2164073756227146641Rat
2307174Activ3Activity QTL 34.830.000058locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)2168594495213594495Rat
2317752Glom23Glomerulus QTL 233.6urine protein amount (VT:0005160)urine protein level (CMO:0000591)2193452645245889826Rat
8694435Bw166Body weight QTL 16614.080.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)2182171407227171407Rat
9589044Scfw1Subcutaneous fat weight QTL 15.80.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)2182171407227171407Rat
8694383Bw158Body weight QTL 1587.690.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)2182171407227171407Rat
8662843Vetf9Vascular elastic tissue fragility QTL 92.05thoracic aorta molecular composition trait (VT:0010568)aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)2157142078226277316Rat
8662832Vetf7Vascular elastic tissue fragility QTL 73.5aorta elastin amount (VT:0003905)aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)281689826221035911Rat
8694194Abfw1Abdominal fat weight QTL 111.70.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)2182171407227171407Rat

Markers in Region
D2Arb23  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22209,852,836 - 209,853,134 (+)MAPPERmRatBN7.2
Rnor_6.02225,336,447 - 225,336,744NCBIRnor6.0
Rnor_5.02243,374,928 - 243,375,225UniSTSRnor5.0
RGSC_v3.42218,396,809 - 218,397,107RGDRGSC3.4
RGSC_v3.42218,396,810 - 218,397,107UniSTSRGSC3.4
RGSC_v3.12218,359,871 - 218,360,169RGD
Celera2202,283,210 - 202,283,507UniSTS
Cytogenetic Map2q41UniSTS
RH128671  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22209,852,127 - 209,852,336 (+)MAPPERmRatBN7.2
Rnor_6.02225,335,738 - 225,335,946NCBIRnor6.0
Rnor_5.02243,374,219 - 243,374,427UniSTSRnor5.0
RGSC_v3.42218,396,101 - 218,396,309UniSTSRGSC3.4
Celera2202,282,501 - 202,282,709UniSTS
RH 3.4 Map21501.4UniSTS
Cytogenetic Map2q41UniSTS
RH94667  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22209,852,706 - 209,852,860 (+)MAPPERmRatBN7.2
Rnor_6.02225,336,317 - 225,336,470NCBIRnor6.0
Rnor_5.02243,374,798 - 243,374,951UniSTSRnor5.0
RGSC_v3.42218,396,680 - 218,396,833UniSTSRGSC3.4
Celera2202,283,080 - 202,283,233UniSTS
RH 3.4 Map21501.0UniSTS
Cytogenetic Map2q41UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 43 57 41 19 41 8 11 74 35 38 11 8
Low 3
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000016739   ⟹   ENSRNOP00000016739
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2209,852,087 - 209,905,680 (-)Ensembl
Rnor_6.0 Ensembl2225,335,718 - 225,389,120 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000106914   ⟹   ENSRNOP00000085866
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2209,852,087 - 209,906,020 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000110813   ⟹   ENSRNOP00000094858
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2209,852,087 - 209,905,680 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000119497   ⟹   ENSRNOP00000079442
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2209,852,087 - 209,905,680 (-)Ensembl
RefSeq Acc Id: NM_012804   ⟹   NP_036936
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82212,536,791 - 212,590,379 (-)NCBI
mRatBN7.22209,852,087 - 209,905,680 (-)NCBI
Rnor_6.02225,335,708 - 225,389,120 (-)NCBI
Rnor_5.02243,374,189 - 243,409,604 (-)NCBI
RGSC_v3.42218,396,071 - 218,432,172 (-)RGD
Celera2202,282,471 - 202,317,962 (-)RGD
Sequence:
RefSeq Acc Id: XM_039101772   ⟹   XP_038957700
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82212,536,791 - 212,590,340 (-)NCBI
mRatBN7.22209,852,087 - 209,905,763 (-)NCBI
RefSeq Acc Id: XM_039101774   ⟹   XP_038957702
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82212,536,791 - 212,590,345 (-)NCBI
mRatBN7.22209,852,087 - 209,905,647 (-)NCBI
RefSeq Acc Id: XM_063281326   ⟹   XP_063137396
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82212,536,791 - 212,589,904 (-)NCBI
RefSeq Acc Id: NP_036936   ⟸   NM_012804
- UniProtKB: P16970 (UniProtKB/Swiss-Prot),   A0A8I6ANP9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000016739   ⟸   ENSRNOT00000016739
RefSeq Acc Id: XP_038957700   ⟸   XM_039101772
- Peptide Label: isoform X1
- UniProtKB: A0A8I5ZN14 (UniProtKB/TrEMBL),   A0A8I6ANP9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038957702   ⟸   XM_039101774
- Peptide Label: isoform X2
- UniProtKB: A0A8I6A495 (UniProtKB/TrEMBL),   A0A8I6ANP9 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000085866   ⟸   ENSRNOT00000106914
RefSeq Acc Id: ENSRNOP00000079442   ⟸   ENSRNOT00000119497
RefSeq Acc Id: ENSRNOP00000094858   ⟸   ENSRNOT00000110813
RefSeq Acc Id: XP_063137396   ⟸   XM_063281326
- Peptide Label: isoform X2
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P16970-F1-model_v2 AlphaFold P16970 1-659 view protein structure

Transcriptome

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

Promoters
RGD ID:13691720
Promoter ID:EPDNEW_R2245
Type:initiation region
Name:Abcd3_1
Description:ATP binding cassette subfamily D member 3
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_6.02225,389,173 - 225,389,233EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2007 AgrOrtholog
BioCyc Gene G2FUF-51390 BioCyc
Ensembl Genes ENSRNOG00000011929 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055026677 UniProtKB/Swiss-Prot
  ENSRNOG00060002776 UniProtKB/Swiss-Prot
  ENSRNOG00065023022 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000016739 ENTREZGENE
  ENSRNOT00000016739.7 UniProtKB/Swiss-Prot
  ENSRNOT00000106914.1 UniProtKB/TrEMBL
  ENSRNOT00000110813.1 UniProtKB/TrEMBL
  ENSRNOT00000119497.1 UniProtKB/TrEMBL
  ENSRNOT00055046119 UniProtKB/Swiss-Prot
  ENSRNOT00060004454 UniProtKB/Swiss-Prot
  ENSRNOT00065039403 UniProtKB/Swiss-Prot
Gene3D-CATH 1.20.1560.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.40.50.300 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro AAA+_ATPase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ABC1_TM_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ABC1_TM_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ABC_transporter-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ABC_transporter-like_CS UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
  FA_transporter UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:25270 UniProtKB/Swiss-Prot
NCBI Gene 25270 ENTREZGENE
PANTHER ATP-BINDING CASSETTE SUB-FAMILY D MEMBER 3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ATP-BINDING CASSETTE, SUB-FAMILY D MEMBER UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam ABC_membrane_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ABC_tran UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Abcd3 PhenoGen
PROSITE ABC_TM1F UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ABC_TRANSPORTER_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ABC_TRANSPORTER_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000011929 RatGTEx
  ENSRNOG00055026677 RatGTEx
  ENSRNOG00060002776 RatGTEx
  ENSRNOG00065023022 RatGTEx
SMART AAA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF90123 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC229511
UniProt A0A8I5ZN14 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A495 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6ANP9 ENTREZGENE, UniProtKB/TrEMBL
  A6HVF3_RAT UniProtKB/TrEMBL
  A6HVF4_RAT UniProtKB/TrEMBL
  A6HVF5_RAT UniProtKB/TrEMBL
  ABCD3_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-09 Abcd3  ATP binding cassette subfamily D member 3  Abcd3  ATP-binding cassette, subfamily D (ALD), member 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-11-16 Abcd3  ATP-binding cassette, subfamily D (ALD), member 3  Abcd3  ATP-binding cassette, sub-family D (ALD), member 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Abcd3  ATP-binding cassette, sub-family D (ALD), member 3      Symbol and Name status set to approved 70586 APPROVED
2001-04-19 Pxmp1  Peroxisomal membrane protein 1      Symbol withdrawn, duplicate entry of Abcd3(RGD:2007) 61478 WITHDRAWN

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization localized to the peroxisomal membrane 631711
gene_domains contains an ATP-binding domain 631711
gene_function may form an ATP-binding channel 631711
gene_homology has similarity to MalK and Mdr ATP-binding proteins 631711
gene_process may play a role in active transport in peroxisomes 631711
gene_product peroxisomal membrane protein 631711
gene_product member of the P-glycoprotein related ATP binding protein superfamily 631711
gene_protein 70-kDa 631711