ABCA1 (ATP binding cassette subfamily A member 1) - Rat Genome Database
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Gene: ABCA1 (ATP binding cassette subfamily A member 1) Sus scrofa
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Symbol: ABCA1
Name: ATP binding cassette subfamily A member 1
RGD ID: 14216440
Description: ENCODES a protein that exhibits apolipoprotein A-I binding (ortholog); apolipoprotein A-I receptor activity (ortholog); apolipoprotein binding (ortholog); INVOLVED IN adenylate cyclase-activating G protein-coupled receptor signaling pathway (ortholog); cellular response to cholesterol (ortholog); cellular response to cytokine stimulus (ortholog); PARTICIPATES IN altered reverse cholesterol transport pathway; retinol metabolic pathway; reverse cholesterol transport pathway; ASSOCIATED WITH Alzheimer's disease (ortholog); atherosclerosis (ortholog); Chronic Hepatitis C (ortholog); FOUND IN basolateral plasma membrane (ortholog); cell surface (ortholog); endocytic vesicle (ortholog); INTERACTS WITH (24S)-24-hydroxycholesterol; fenofibrate; pioglitazone
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: ATP-binding cassette sub-family A member 1; ATP-binding cassette, sub-family A (ABC1), member 1; phospholipid-transporting ATPase ABCA1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1246,144,277 - 246,278,492 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11246,144,277 - 246,278,492 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21275,475,434 - 275,507,918 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
adenylate cyclase-activating G protein-coupled receptor signaling pathway  (ISO)
cellular response to cholesterol  (ISO)
cellular response to cytokine stimulus  (ISO)
cellular response to drug  (ISO)
cellular response to high density lipoprotein particle stimulus  (ISO)
cellular response to lipopolysaccharide  (IEA,ISO)
cellular response to retinoic acid  (IEA,ISO)
cholesterol efflux  (IEA,ISO)
cholesterol homeostasis  (ISO)
cholesterol metabolic process  (IEA,ISO)
cholesterol transport  (ISO)
endosomal transport  (ISO)
export across plasma membrane  (IEA,ISO)
G protein-coupled receptor signaling pathway  (ISO)
high-density lipoprotein particle assembly  (ISO)
intermembrane lipid transfer  (IEA)
intracellular cholesterol transport  (ISO)
lipid transport  (IBA)
lipoprotein biosynthetic process  (ISO)
lipoprotein metabolic process  (ISO)
lysosome organization  (ISO)
peptide secretion  (ISO)
phagocytosis, engulfment  (IEA,ISO)
phospholipid efflux  (IBA,ISO)
phospholipid homeostasis  (ISO)
phospholipid translocation  (IEA,ISO)
phospholipid transport  (ISO)
platelet dense granule organization  (ISO)
positive regulation of cholesterol efflux  (IEA,ISO)
positive regulation of high-density lipoprotein particle assembly  (IEA,ISO)
protein lipidation  (IEA,ISO)
protein secretion  (IEA,ISO)
protein transmembrane transport  (IEA,ISO)
regulation of Cdc42 protein signal transduction  (ISO)
response to drug  (ISO)
response to laminar fluid shear stress  (ISO)
response to nutrient  (ISO)
response to nutrient levels  (ISO)
reverse cholesterol transport  (IEA,ISO)
signal release  (IEA,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:17922810   PMID:19897713   PMID:25445391  


Genomics

Comparative Map Data
ABCA1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1246,144,277 - 246,278,492 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11246,144,277 - 246,278,492 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21275,475,434 - 275,507,918 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ABCA1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl9104,781,006 - 104,928,155 (-)EnsemblGRCh38hg38GRCh38
GRCh389104,781,006 - 104,928,232 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh379107,543,287 - 107,690,436 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 369106,583,104 - 106,730,257 (-)NCBINCBI36hg18NCBI36
Build 349104,622,837 - 104,769,991NCBI
Celera978,048,593 - 78,195,737 (-)NCBI
Cytogenetic Map9q31.1NCBI
HuRef977,145,450 - 77,292,489 (-)NCBIHuRef
CHM1_19107,690,161 - 107,837,338 (-)NCBICHM1_1
Abca1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39453,030,789 - 53,159,988 (-)NCBIGRCm39mm39
GRCm39 Ensembl453,030,787 - 53,159,895 (-)Ensembl
GRCm38453,030,789 - 53,159,988 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl453,030,787 - 53,159,895 (-)EnsemblGRCm38mm10GRCm38
MGSCv37453,043,661 - 53,172,767 (-)NCBIGRCm37mm9NCBIm37
MGSCv36453,051,888 - 53,180,992 (-)NCBImm8
Celera453,009,587 - 53,133,003 (-)NCBICelera
Cytogenetic Map4B2NCBI
cM Map428.57NCBI
Abca1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2567,678,267 - 67,801,162 (-)NCBI
Rnor_6.0 Ensembl569,857,771 - 69,983,015 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0569,857,717 - 69,983,042 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0574,023,652 - 74,112,802 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4570,493,357 - 70,583,729 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1570,498,469 - 70,588,842 (-)NCBI
Celera566,575,764 - 66,665,022 (-)NCBICelera
Cytogenetic Map5q23-q24NCBI
Abca1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541921,553,835 - 21,681,619 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541921,553,863 - 21,681,626 (+)NCBIChiLan1.0ChiLan1.0
ABCA1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.19104,076,516 - 104,224,188 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9104,076,516 - 104,224,188 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0975,948,831 - 76,096,136 (-)NCBIMhudiblu_PPA_v0panPan3
ABCA1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1160,761,655 - 60,890,496 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11160,761,669 - 60,869,753 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Abca1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365597,177,887 - 7,312,660 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ABCA1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11234,587,123 - 34,734,936 (+)NCBI
ChlSab1.1 Ensembl1234,587,118 - 34,731,642 (+)Ensembl
Abca1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247586,449,583 - 6,590,244 (+)NCBI


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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 10 2 1 5 1 3 2 3 3
Low 2 2 1 20
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000005966   ⟹   ENSSSCP00000005818
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1246,144,277 - 246,278,492 (-)Ensembl
RefSeq Acc Id: NM_001317080   ⟹   NP_001304009
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11246,144,277 - 246,278,492 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001304009 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AIU98522 (Get FASTA)   NCBI Sequence Viewer  
  JAA53776 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001304009   ⟸   NM_001317080
- UniProtKB: A0A0A0R2Y4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000005818   ⟸   ENSSSCT00000005966
Protein Domains
ABC transporter


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000005423 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00070023718 UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000005818 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00070039939 UniProtKB/TrEMBL
  ENSSSCP00070039943 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000005966 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00070047333 UniProtKB/TrEMBL
  ENSSSCT00070047340 UniProtKB/TrEMBL
InterPro AAA+_ATPase UniProtKB/TrEMBL
  ABC_transporter-like UniProtKB/TrEMBL
  ABC_transporter_CS UniProtKB/TrEMBL
  ABCA UniProtKB/TrEMBL
  ABCA1 UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
KEGG Report ssc:100152112 UniProtKB/TrEMBL
NCBI Gene ABCA1 ENTREZGENE
PANTHER PTHR19229 UniProtKB/TrEMBL
  PTHR19229:SF34 UniProtKB/TrEMBL
Pfam ABC_tran UniProtKB/TrEMBL
PROSITE ABC_TRANSPORTER_1 UniProtKB/TrEMBL
  ABC_TRANSPORTER_2 UniProtKB/TrEMBL
SMART AAA UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
UniProt A0A0A0R2Y4 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1VEX4_PIG UniProtKB/TrEMBL
  F1SP55_PIG UniProtKB/TrEMBL
  K9J4V5_PIG UniProtKB/TrEMBL
VGNC ID VGNC:84947 ENTREZGENE