Abca3 (ATP binding cassette subfamily A member 3) - Rat Genome Database

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Gene: Abca3 (ATP binding cassette subfamily A member 3) Rattus norvegicus
Analyze
Symbol: Abca3
Name: ATP binding cassette subfamily A member 3
RGD ID: 1307174
Description: Predicted to enable ABC-type xenobiotic transporter activity; ATP hydrolysis activity; and phosphatidylcholine transporter activity. Involved in positive regulation of vesicle fusion and response to glucocorticoid. Located in alveolar lamellar body membrane. Human ortholog(s) of this gene implicated in lung disease (multiple). Orthologous to human ABCA3 (ATP binding cassette subfamily A member 3); PARTICIPATES IN altered surfactant homeostasis pathway; surfactant homeostasis pathway; transport pathway; INTERACTS WITH (+)-schisandrin B; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: ATP-binding cassette sub-family A member 3; ATP-binding cassette, sub-family A (ABC1), member 3; ATP-binding cassette, subfamily A (ABC1), member 3; LOC302973; phospholipid-transporting ATPase ABCA3; xenobiotic-transporting ATPase ABCA3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81013,886,948 - 13,944,286 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1013,887,083 - 13,944,285 (+)EnsemblGRCr8
mRatBN7.21013,382,439 - 13,439,748 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1013,382,540 - 13,439,745 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1018,128,894 - 18,186,191 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01017,617,736 - 17,675,035 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01013,116,920 - 13,174,223 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd1016,810,482 - 16,867,673 (+)NCBIDahl_SR_JrHsd
Lyon_Normotensive1017,471,885 - 17,529,187 (+)NCBILyon_Normotensive
Lyon_Hypertensive1019,163,811 - 19,221,004 (+)NCBILyon_Hypertensive
F344_StmMcwi1019,156,822 - 19,214,122 (+)NCBIF344_StmMcwi
Rnor_6.01013,723,365 - 13,780,558 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1013,723,405 - 13,779,963 (+)Ensemblrn6Rnor6.0
Rnor_5.01013,539,739 - 13,597,488 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41013,619,865 - 13,665,066 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1013,062,889 - 13,120,240 (+)NCBICelera
RGSC_v3.11013,605,987 - 13,664,059 (+)NCBI
Cytogenetic Map10q12NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
(1->4)-beta-D-glucan  (ISO)
1,2-dimethylhydrazine  (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)
2,6-dinitrotoluene  (EXP)
2-methylcholine  (ISO)
3-chloropropane-1,2-diol  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
aflatoxin B1  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (EXP)
bleomycin A2  (EXP)
cadmium dichloride  (EXP,ISO)
calcitriol  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
cyclosporin A  (ISO)
DDE  (ISO)
diarsenic trioxide  (ISO)
Didecyldimethylammonium  (ISO)
dioxygen  (ISO)
disulfiram  (ISO)
doxorubicin  (ISO)
ethanol  (ISO)
ethylparaben  (ISO)
gentamycin  (EXP)
GSK-J4  (ISO)
hydrogen peroxide  (ISO)
indometacin  (ISO)
inulin  (ISO)
ketoconazole  (EXP)
lead(0)  (ISO)
methapyrilene  (ISO)
methotrexate  (ISO)
Monobutylphthalate  (EXP)
N-nitrosodiethylamine  (ISO)
nefazodone  (EXP)
nickel atom  (ISO)
paracetamol  (EXP,ISO)
paraquat  (EXP)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
pyrazinecarboxamide  (EXP)
senecionine  (ISO)
sunitinib  (ISO)
temozolomide  (ISO)
tetrachloromethane  (EXP,ISO)
titanium dioxide  (ISO)
triclosan  (ISO)
triphenyl phosphate  (ISO)
triptonide  (ISO)
troglitazone  (ISO)
tungsten  (ISO)
valproic acid  (EXP,ISO)
vincaleukoblastine  (ISO)
vinclozolin  (EXP)
zidovudine  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. An intronic ABCA3 mutation that is responsible for respiratory disease. Agrawal A, etal., Pediatr Res. 2012 Jun;71(6):633-7. doi: 10.1038/pr.2012.21. Epub 2012 Feb 15.
2. ABCA3 mutations associated with pediatric interstitial lung disease. Bullard JE, etal., Am J Respir Crit Care Med. 2005 Oct 15;172(8):1026-31. Epub 2005 Jun 23.
3. Molecular and cellular characteristics of ABCA3 mutations associated with diffuse parenchymal lung diseases in children. Flamein F, etal., Hum Mol Genet. 2012 Feb 15;21(4):765-75. doi: 10.1093/hmg/ddr508. Epub 2011 Nov 7.
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. Secretagogues of lung surfactant increase annexin A7 localization with ABCA3 in alveolar type II cells. Gerelsaikhan T, etal., Biochim Biophys Acta. 2011 Dec;1813(12):2017-25. doi: 10.1016/j.bbamcr.2011.07.022. Epub 2011 Sep 2.
6. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
7. Lung disease caused by ABCA3 mutations. Kröner C, etal., Thorax. 2017 Mar;72(3):213-220. doi: 10.1136/thoraxjnl-2016-208649. Epub 2016 Aug 11.
8. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
9. Identification of LBM180, a lamellar body limiting membrane protein of alveolar type II cells, as the ABC transporter protein ABCA3. Mulugeta S, etal., J Biol Chem. 2002 Jun 21;277(25):22147-55. Epub 2002 Apr 8.
10. Partial truncation of the NH2-terminus affects physical characteristics and membrane binding, aggregation, and fusion properties of annexin A7. Naidu DG, etal., Biochim Biophys Acta. 2005 May 15;1734(2):152-68. Epub 2005 Apr 13.
11. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
12. GOA pipeline RGD automated data pipeline
13. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
14. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
15. Comprehensive gene review and curation RGD comprehensive gene curation
16. The Haplotype TGGAG in the ABCA3 Gene Increases the Risk of Respiratory Distress Syndrome in Preterm Infants in Southern China. Tian W, etal., Pediatr Neonatol. 2016 Jun;57(3):188-94. doi: 10.1016/j.pedneo.2015.09.002. Epub 2015 Oct 27.
17. Genotype-phenotype correlations for infants and children with ABCA3 deficiency. Wambach JA, etal., Am J Respir Crit Care Med. 2014 Jun 15;189(12):1538-43. doi: 10.1164/rccm.201402-0342OC.
18. Genetic disorders of surfactant homeostasis. Whitsett JA, etal., Biol Neonate 2005;87(4):283-7. Epub 2005 Jun 1.
19. Expression of ABCA3, a causative gene for fatal surfactant deficiency, is up-regulated by glucocorticoids in lung alveolar type II cells. Yoshida I, etal., Biochem Biophys Res Commun. 2004 Oct 15;323(2):547-55.
Additional References at PubMed
PMID:11718719   PMID:12477932   PMID:14982840   PMID:15531465   PMID:22664934   PMID:22871113  


Genomics

Comparative Map Data
Abca3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81013,886,948 - 13,944,286 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1013,887,083 - 13,944,285 (+)EnsemblGRCr8
mRatBN7.21013,382,439 - 13,439,748 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1013,382,540 - 13,439,745 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1018,128,894 - 18,186,191 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01017,617,736 - 17,675,035 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01013,116,920 - 13,174,223 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd1016,810,482 - 16,867,673 (+)NCBIDahl_SR_JrHsd
Lyon_Normotensive1017,471,885 - 17,529,187 (+)NCBILyon_Normotensive
Lyon_Hypertensive1019,163,811 - 19,221,004 (+)NCBILyon_Hypertensive
F344_StmMcwi1019,156,822 - 19,214,122 (+)NCBIF344_StmMcwi
Rnor_6.01013,723,365 - 13,780,558 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1013,723,405 - 13,779,963 (+)Ensemblrn6Rnor6.0
Rnor_5.01013,539,739 - 13,597,488 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41013,619,865 - 13,665,066 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1013,062,889 - 13,120,240 (+)NCBICelera
RGSC_v3.11013,605,987 - 13,664,059 (+)NCBI
Cytogenetic Map10q12NCBI
ABCA3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38162,275,881 - 2,340,728 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl162,275,878 - 2,340,749 (-)Ensemblhg38GRCh38
GRCh37162,325,882 - 2,390,729 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36162,265,880 - 2,330,748 (-)NCBIBuild 36Build 36hg18NCBI36
Build 34162,265,883 - 2,330,595NCBI
Celera162,540,308 - 2,605,176 (-)NCBICelera
Cytogenetic Map16p13.3NCBI
HuRef162,251,902 - 2,305,693 (-)NCBIHuRef
CHM1_1162,325,836 - 2,390,894 (-)NCBICHM1_1
T2T-CHM13v2.0162,298,327 - 2,363,113 (-)NCBIT2T-CHM13v2.0
Abca3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391724,570,997 - 24,629,178 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1724,570,924 - 24,629,175 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381724,351,921 - 24,410,204 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1724,351,950 - 24,410,201 (+)Ensemblmm10GRCm38
MGSCv371724,488,991 - 24,547,146 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361724,079,646 - 24,137,801 (+)NCBIMGSCv36mm8
Celera1724,865,306 - 24,922,824 (+)NCBICelera
Cytogenetic Map17A3.3NCBI
cM Map1712.38NCBI
Abca3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544214,933,550 - 14,989,492 (+)Ensembl
ChiLan1.0NW_00495544214,933,550 - 14,989,492 (+)NCBIChiLan1.0ChiLan1.0
ABCA3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2182,777,564 - 2,841,351 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1166,558,502 - 6,622,328 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0161,132,435 - 1,196,226 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1162,376,006 - 2,437,427 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl162,376,006 - 2,437,427 (-)EnsemblpanPan2panpan1.1
ABCA3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1638,679,312 - 38,712,868 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl638,679,324 - 38,712,648 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha639,912,394 - 39,952,493 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0638,981,385 - 39,021,683 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl638,981,033 - 39,021,741 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1638,666,452 - 38,706,734 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0638,638,971 - 38,679,063 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0639,117,459 - 39,157,746 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Abca3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344104,931,363 - 104,975,718 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366941,736,207 - 1,778,116 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049366941,735,206 - 1,778,100 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ABCA3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl339,698,895 - 39,732,978 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1339,689,133 - 39,732,466 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2342,433,553 - 42,469,125 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ABCA3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.152,171,487 - 2,218,851 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366606828,821,142 - 28,886,157 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Abca3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462482484,430 - 144,062 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462482485,369 - 144,053 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Abca3
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v191,641,001 - 1,698,253 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Abca3
197 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:262
Count of miRNA genes:154
Interacting mature miRNAs:173
Transcripts:ENSRNOT00000072789
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10589381150893811Rat
631660Hcar1Hepatocarcinoma resistance QTL 13.40.0001liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)10666111835509383Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10666092373950353Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10589381150893811Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10125055464349221Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10589381150893811Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10687714251877142Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135730538Rat
7387235Uae41Urinary albumin excretion QTL 415.260.1874urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)10130004247Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10589381150893811Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10686461896620484Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1092219745922197Rat
2317754Glom25Glomerulus QTL 253.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)10210370847103708Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10589381150893811Rat
631828Alc5Alcohol consumption QTL 52.4consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10117749933Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138832698Rat

Markers in Region
D10Got27  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21013,405,273 - 13,405,552 (+)MAPPERmRatBN7.2
Rnor_6.01013,746,087 - 13,746,365NCBIRnor6.0
Rnor_5.01013,562,543 - 13,562,821UniSTSRnor5.0
RGSC_v3.41013,629,440 - 13,629,719RGDRGSC3.4
RGSC_v3.41013,629,441 - 13,629,719UniSTSRGSC3.4
Celera1013,085,790 - 13,086,068UniSTS
RGSC_v3.11013,629,441 - 13,629,719RGD
RH 3.4 Map10173.0UniSTS
RH 3.4 Map10173.0RGD
RH 2.0 Map10118.3RGD
Cytogenetic Map10q12UniSTS
D10Got29  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21013,405,272 - 13,405,568 (+)MAPPERmRatBN7.2
Rnor_6.01013,746,086 - 13,746,381NCBIRnor6.0
Rnor_5.01013,562,542 - 13,562,837UniSTSRnor5.0
RGSC_v3.41013,629,439 - 13,629,735RGDRGSC3.4
RGSC_v3.41013,629,440 - 13,629,735UniSTSRGSC3.4
Celera1013,085,789 - 13,086,084UniSTS
RGSC_v3.11013,629,439 - 13,629,735RGD
RH 2.0 Map10134.4RGD
Cytogenetic Map10q12UniSTS
RH132645  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21013,439,440 - 13,439,650 (+)MAPPERmRatBN7.2
Rnor_6.01013,780,251 - 13,780,460NCBIRnor6.0
Rnor_5.01013,597,181 - 13,597,390UniSTSRnor5.0
RGSC_v3.41013,664,545 - 13,664,754UniSTSRGSC3.4
Celera1013,119,933 - 13,120,142UniSTS
RH 3.4 Map10171.5UniSTS
Cytogenetic Map10q12UniSTS
Abca3  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21013,437,608 - 13,438,953 (+)MAPPERmRatBN7.2
Rnor_6.01013,778,419 - 13,779,763NCBIRnor6.0
Rnor_5.01013,595,349 - 13,596,693UniSTSRnor5.0
RGSC_v3.41013,662,713 - 13,664,057UniSTSRGSC3.4
Celera1013,118,101 - 13,119,445UniSTS
Cytogenetic Map10q12UniSTS


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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 164 91 90 59 92 59 6 356 192 11 143 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000072789   ⟹   ENSRNOP00000064755
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1013,887,139 - 13,902,349 (+)Ensembl
mRatBN7.2 Ensembl1013,382,595 - 13,397,807 (+)Ensembl
Rnor_6.0 Ensembl1013,723,405 - 13,738,623 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000079700   ⟹   ENSRNOP00000071944
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1013,887,083 - 13,944,285 (+)Ensembl
mRatBN7.2 Ensembl1013,382,540 - 13,439,745 (+)Ensembl
Rnor_6.0 Ensembl1013,736,313 - 13,779,963 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000106691   ⟹   ENSRNOP00000096646
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1013,887,083 - 13,944,285 (+)Ensembl
mRatBN7.2 Ensembl1013,382,540 - 13,439,745 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000106705   ⟹   ENSRNOP00000088361
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1013,887,083 - 13,944,285 (+)Ensembl
mRatBN7.2 Ensembl1013,382,540 - 13,439,745 (+)Ensembl
RefSeq Acc Id: NM_001396034   ⟹   NP_001382963
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,887,084 - 13,944,286 (+)NCBI
mRatBN7.21013,382,540 - 13,439,748 (+)NCBI
Dahl_SR_JrHsd1016,810,482 - 16,867,673 (+)NCBI
Lyon_Normotensive1017,471,885 - 17,529,187 (+)NCBI
Lyon_Hypertensive1019,163,811 - 19,221,004 (+)NCBI
F344_StmMcwi1019,156,822 - 19,214,122 (+)NCBI
RefSeq Acc Id: XM_006246039   ⟹   XP_006246101
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,886,986 - 13,944,286 (+)NCBI
mRatBN7.21013,382,443 - 13,438,955 (+)NCBI
Rnor_6.01013,723,365 - 13,780,558 (+)NCBI
Rnor_5.01013,539,739 - 13,597,488 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039087080   ⟹   XP_038943008
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,886,986 - 13,944,286 (+)NCBI
mRatBN7.21013,382,443 - 13,438,955 (+)NCBI
RefSeq Acc Id: XM_039087081   ⟹   XP_038943009
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,886,948 - 13,934,715 (+)NCBI
mRatBN7.21013,382,439 - 13,430,171 (+)NCBI
RefSeq Acc Id: XM_063268917   ⟹   XP_063124987
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,886,986 - 13,944,286 (+)NCBI
RefSeq Acc Id: XP_006246101   ⟸   XM_006246039
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K1Q8 (UniProtKB/TrEMBL),   A6HCR5 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000071944   ⟸   ENSRNOT00000079700
Ensembl Acc Id: ENSRNOP00000064755   ⟸   ENSRNOT00000072789
RefSeq Acc Id: XP_038943009   ⟸   XM_039087081
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038943008   ⟸   XM_039087080
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K1Q8 (UniProtKB/Swiss-Prot),   A6HCR5 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000088361   ⟸   ENSRNOT00000106705
Ensembl Acc Id: ENSRNOP00000096646   ⟸   ENSRNOT00000106691
RefSeq Acc Id: NP_001382963   ⟸   NM_001396034
- UniProtKB: A0A0G2K1Q8 (UniProtKB/Swiss-Prot),   A6HCR5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063124987   ⟸   XM_063268917
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K1Q8 (UniProtKB/Swiss-Prot),   A6HCR5 (UniProtKB/TrEMBL)
Protein Domains
ABC transporter

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2K1Q8-F1-model_v2 AlphaFold A0A0G2K1Q8 1-1704 view protein structure

Transcriptome

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

Promoters
RGD ID:13697016
Promoter ID:EPDNEW_R7532
Type:initiation region
Name:Abca3_1
Description:ATP binding cassette subfamily A 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_6.01013,723,349 - 13,723,409EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307174 AgrOrtholog
BioCyc Gene G2FUF-25865 BioCyc
Ensembl Genes ENSRNOG00000050057 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000079700 ENTREZGENE
  ENSRNOT00000079700.2 UniProtKB/Swiss-Prot
Gene3D-CATH 3.40.50.300 UniProtKB/Swiss-Prot
InterPro AAA+_ATPase UniProtKB/Swiss-Prot
  ABC2_TM UniProtKB/Swiss-Prot
  ABC_transporter-like UniProtKB/Swiss-Prot
  ABC_transporter_CS UniProtKB/Swiss-Prot
  ABCA UniProtKB/Swiss-Prot
  P-loop_NTPase UniProtKB/Swiss-Prot
  R2_ABCA1-4-like UniProtKB/Swiss-Prot
NCBI Gene 302973 ENTREZGENE
PANTHER ABC TRANSPORTER DOMAIN-CONTAINING PROTEIN-RELATED UniProtKB/Swiss-Prot
  PTHR19229 UniProtKB/Swiss-Prot
Pfam ABC2_membrane_3 UniProtKB/Swiss-Prot
  ABC_tran UniProtKB/Swiss-Prot
  R1_ABCA1 UniProtKB/Swiss-Prot
PhenoGen Abca3 PhenoGen
PROSITE ABC_TRANSPORTER_1 UniProtKB/Swiss-Prot
  ABC_TRANSPORTER_2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000050057 RatGTEx
SMART AAA UniProtKB/Swiss-Prot
Superfamily-SCOP SSF52540 UniProtKB/Swiss-Prot
UniProt A0A0G2K1Q8 ENTREZGENE
  A0A8I6AIR0_RAT UniProtKB/TrEMBL
  A0A8I6AQZ2_RAT UniProtKB/TrEMBL
  A6HCR5 ENTREZGENE, UniProtKB/TrEMBL
  ABCA3_RAT UniProtKB/Swiss-Prot
  Q5M866_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-09 Abca3  ATP binding cassette subfamily A member 3  Abca3  ATP-binding cassette, subfamily A (ABC1), member 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-11-16 Abca3  ATP-binding cassette, subfamily A (ABC1), member 3  Abca3  ATP-binding cassette, sub-family A (ABC1), member 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Abca3  ATP-binding cassette, sub-family A (ABC1), member 3  Abca3_predicted  ATP-binding cassette, sub-family A (ABC1), member 3 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Abca3_predicted  ATP-binding cassette, sub-family A (ABC1), member 3 (predicted)      Symbol and Name status set to approved 70820 APPROVED