Abca2 (ATP binding cassette subfamily A member 2) - Rat Genome Database

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Gene: Abca2 (ATP binding cassette subfamily A member 2) Ictidomys tridecemlineatus
Analyze
Symbol: Abca2
Name: ATP binding cassette subfamily A member 2
RGD ID: 12649751
Description: ENCODES a protein that exhibits ABC-type transporter activity (inferred); ATP binding (inferred); ATP hydrolysis activity (inferred); INVOLVED IN central nervous system myelin formation (ortholog); ganglioside metabolic process (ortholog); glycosphingolipid metabolic process (ortholog); ASSOCIATED WITH Adams-Oliver Syndrome 5 (ortholog); autism spectrum disorder (ortholog); autosomal dominant intellectual developmental disorder 8 (ortholog); FOUND IN cytoplasmic vesicle (ortholog); endosome membrane (ortholog); lysosomal membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: ATP-binding cassette sub-family A member 2
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947202,433,062 - 202,454,661 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936669926,622 - 942,167 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936669922,978 - 941,996 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
central nervous system myelin formation  (ISO)
ceramide translocation  (IEA)
cholesterol homeostasis  (IEA)
ganglioside metabolic process  (ISO)
glycosphingolipid metabolic process  (ISO)
intracellular sphingolipid homeostasis  (IEA)
lipid transport  (IEA)
locomotory behavior  (ISO)
negative regulation of cholesterol efflux  (IEA,ISO)
negative regulation of intracellular cholesterol transport  (IEA,ISO)
negative regulation of phospholipid biosynthetic process  (IEA)
negative regulation of receptor-mediated endocytosis involved in cholesterol transport  (IEA,ISO)
negative regulation of sphingolipid biosynthetic process  (IEA)
negative regulation of steroid metabolic process  (ISO)
positive regulation of amyloid precursor protein biosynthetic process  (IEA)
positive regulation of amyloid precursor protein catabolic process  (IEA,ISO)
positive regulation of amyloid-beta formation  (IEA,ISO)
positive regulation of low-density lipoprotein particle receptor catabolic process  (IEA,ISO)
regulation of cholesterol biosynthetic process  (ISO)
regulation of intracellular cholesterol transport  (IEA)
regulation of post-translational protein modification  (IEA,ISO)
regulation of protein glycosylation  (ISO)
regulation of protein localization to cell periphery  (ISO)
regulation of protein localization to cell surface  (ISO)
regulation of steroid metabolic process  (IEA,ISO)
response to cholesterol  (IEA)
response to steroid hormone  (IEA)
sphingomyelin metabolic process  (ISO)
sphingosine biosynthetic process  (IEA,ISO)
transmembrane transport  (IEA)

Cellular Component

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Abca2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947202,433,062 - 202,454,661 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936669926,622 - 942,167 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936669922,978 - 941,996 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ABCA2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389137,007,234 - 137,028,922 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9137,007,234 - 137,028,915 (-)EnsemblGRCh38hg38GRCh38
GRCh379139,901,686 - 139,923,374 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 369139,021,507 - 139,043,195 (-)NCBINCBI36Build 36hg18NCBI36
Build 349137,177,522 - 137,199,211NCBI
Celera9110,414,121 - 110,431,191 (-)NCBICelera
Cytogenetic Map9q34.3NCBI
HuRef9109,360,841 - 109,382,226 (-)NCBIHuRef
CHM1_19140,050,436 - 140,072,137 (-)NCBICHM1_1
T2T-CHM13v2.09149,241,651 - 149,263,357 (-)NCBIT2T-CHM13v2.0
Abca2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39225,318,611 - 25,338,556 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl225,318,715 - 25,338,552 (+)EnsemblGRCm39 Ensembl
GRCm38225,428,599 - 25,448,544 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl225,428,703 - 25,448,540 (+)EnsemblGRCm38mm10GRCm38
MGSCv37225,284,194 - 25,304,059 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36225,250,779 - 25,270,208 (+)NCBIMGSCv36mm8
Celera225,156,185 - 25,176,102 (+)NCBICelera
Cytogenetic Map2A3NCBI
cM Map217.25NCBI
Abca2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8328,642,660 - 28,662,689 (+)NCBIGRCr8
mRatBN7.238,244,515 - 8,264,545 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl38,244,639 - 8,264,537 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx311,349,736 - 11,369,666 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0319,935,958 - 19,955,888 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0318,125,806 - 18,145,736 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.032,648,787 - 2,668,770 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl32,648,885 - 2,668,809 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.032,630,237 - 2,650,183 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.433,595,423 - 3,615,328 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.133,595,422 - 3,615,327 (+)NCBI
Celera33,069,743 - 3,089,646 (+)NCBICelera
Cytogenetic Map3p13NCBI
Abca2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555135,033,771 - 5,051,200 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555135,035,879 - 5,051,140 (-)NCBIChiLan1.0ChiLan1.0
ABCA2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2112,369,797 - 2,391,636 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan192,372,769 - 2,393,970 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v09108,067,633 - 108,089,742 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.19137,039,264 - 137,057,527 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9137,036,696 - 137,057,776 (-)Ensemblpanpan1.1panPan2
ABCA2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1948,610,906 - 48,630,932 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl948,613,996 - 48,629,857 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha947,824,500 - 47,844,585 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0949,488,905 - 49,509,018 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1948,265,133 - 48,285,232 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0948,563,850 - 48,583,927 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0948,611,199 - 48,631,304 (+)NCBIUU_Cfam_GSD_1.0
ABCA2
(Sus scrofa - pig)		 No map positions available.
ABCA2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1121,161,340 - 1,183,807 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl121,162,865 - 1,183,113 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660584,118,329 - 4,134,713 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Abca2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624760880,148 - 898,751 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624760880,216 - 898,753 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSSTOT00000013852   ⟹   ENSSTOP00000012412
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_004936669926,622 - 942,167 (+)Ensembl
RefSeq Acc Id: ENSSTOT00000039075   ⟹   ENSSTOP00000027257
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_004936669926,622 - 942,167 (+)Ensembl
RefSeq Acc Id: XM_040283842   ⟹   XP_040139776
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024404947202,433,062 - 202,454,661 (-)NCBI
Protein Sequences
Protein RefSeqs XP_040139776 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000012412.2
  ENSSTOP00000027257.1
GenBank Protein KAG3288415 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_040139776   ⟸   XM_040283842
- UniProtKB: I3MLT5 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSSTOP00000027257   ⟸   ENSSTOT00000039075
RefSeq Acc Id: ENSSTOP00000012412   ⟸   ENSSTOT00000013852
Protein Domains
ABC transporter


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000013825 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000013852.3 UniProtKB/TrEMBL
  ENSSTOT00000039075.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.300 UniProtKB/TrEMBL
InterPro AAA+_ATPase UniProtKB/TrEMBL
  ABC2_TM UniProtKB/TrEMBL
  ABC_transporter-like UniProtKB/TrEMBL
  ABC_transporter_CS UniProtKB/TrEMBL
  ABCA UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
NCBI Gene Abca2 ENTREZGENE
PANTHER ATP-BINDING CASSETTE SUB-FAMILY A MEMBER 2 UniProtKB/TrEMBL
  PTHR19229 UniProtKB/TrEMBL
Pfam ABC2_membrane_3 UniProtKB/TrEMBL
  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 A0A287D158_ICTTR UniProtKB/TrEMBL
  I3MLT5 ENTREZGENE, UniProtKB/TrEMBL