Abca13 (ATP binding cassette subfamily A member 13) - Rat Genome Database

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Gene: Abca13 (ATP binding cassette subfamily A member 13) Chinchilla lanigera
Analyze
Symbol: Abca13
Name: ATP binding cassette subfamily A member 13
RGD ID: 8898926
Description: INVOLVED IN ceramide transport (ortholog); positive regulation of cholesterol transport (ortholog); positive regulation of synaptic vesicle endocytosis (ortholog); ASSOCIATED WITH Colorectal Neoplasms (ortholog); Disease Progression (ortholog); gastric adenocarcinoma (ortholog); FOUND IN intracellular vesicle (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: ATP-binding cassette sub-family A member 13; ATP-binding cassette, sub-family A (ABC1), member 13
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554564,978,027 - 5,341,242 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554564,977,504 - 5,341,259 (-)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Abca13
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554564,978,027 - 5,341,242 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554564,977,504 - 5,341,259 (-)NCBIChiLan1.0ChiLan1.0
ABCA13
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38748,171,458 - 48,647,497 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl748,171,458 - 48,647,497 (+)EnsemblGRCh38hg38GRCh38
GRCh37748,211,055 - 48,687,093 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36748,208,389 - 48,657,637 (+)NCBINCBI36Build 36hg18NCBI36
Build 34748,015,103 - 48,464,352NCBI
Celera748,310,673 - 48,789,160 (+)NCBICelera
Cytogenetic Map7p12.3NCBI
HuRef748,123,477 - 48,573,410 (+)NCBIHuRef
CHM1_1748,214,726 - 48,691,744 (+)NCBICHM1_1
T2T-CHM13v2.0748,333,668 - 48,808,476 (+)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v2748,250,847 - 48,729,205 (+)NCBI
Abca13
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39119,141,942 - 9,634,871 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl119,141,942 - 9,634,259 (+)EnsemblGRCm39 Ensembl
GRCm38119,191,942 - 9,684,871 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl119,191,942 - 9,684,259 (+)EnsemblGRCm38mm10GRCm38
MGSCv37119,091,945 - 9,584,262 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36119,091,945 - 9,584,854 (+)NCBIMGSCv36mm8
Celera119,626,362 - 10,117,712 (+)NCBICelera
Cytogenetic Map11A1NCBI
cM Map116.13NCBI
Abca13
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81488,087,146 - 88,589,868 (+)NCBIGRCr8
mRatBN7.21483,873,397 - 84,376,138 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1483,873,940 - 84,375,075 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.01489,384,512 - 89,876,748 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1489,384,512 - 89,714,917 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01489,181,315 - 89,673,490 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41489,714,129 - 90,226,523 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11489,733,273 - 90,245,668 (+)NCBI
Celera1482,904,207 - 83,402,514 (+)NCBICelera
Cytogenetic Map14q21NCBI
ABCA13
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2653,046,782 - 53,560,530 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan17101,371,604 - 101,847,546 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0748,812,624 - 49,288,605 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1748,920,381 - 49,395,168 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl748,920,381 - 49,393,235 (+)Ensemblpanpan1.1panPan2
ABCA13
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.118136,338 - 353,974 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl18135,690 - 352,871 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha18105,137 - 345,216 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.018170,886 - 410,247 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.118145,704 - 385,777 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.018148,601 - 382,649 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.018283,754 - 516,659 (+)NCBIUU_Cfam_GSD_1.0
LOC100514786
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9135,115,078 - 135,451,812 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.19135,104,047 - 135,452,477 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29148,623,167 - 148,905,164 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ABCA13
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12110,124,078 - 10,618,136 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2110,124,126 - 10,616,750 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606211,615,711 - 12,116,107 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Abca13
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247405,114,019 - 5,488,385 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247405,112,422 - 5,488,394 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSCLAT00000008169   ⟹   ENSCLAP00000008048
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554564,978,027 - 5,341,242 (-)Ensembl
Ensembl Acc Id: ENSCLAT00000008170   ⟹   ENSCLAP00000008049
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554565,302,685 - 5,325,937 (-)Ensembl
RefSeq Acc Id: XM_013520510   ⟹   XP_013375964
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554564,977,504 - 5,341,259 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_013375964 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000008048
  ENSCLAP00000008048.1
  ENSCLAP00000008049.1
RefSeq Acc Id: XP_013375964   ⟸   XM_013520510
- UniProtKB: A0A8C2UZI0 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSCLAP00000008049   ⟸   ENSCLAT00000008170
Ensembl Acc Id: ENSCLAP00000008048   ⟸   ENSCLAT00000008169
Protein Domains
ABC transporter


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000005636 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000008169 ENTREZGENE
  ENSCLAT00000008169.1 UniProtKB/TrEMBL
  ENSCLAT00000008170.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.300 UniProtKB/TrEMBL
InterPro AAA+_ATPase UniProtKB/TrEMBL
  ABC2_TM UniProtKB/TrEMBL
  ABC_transporter-like_ATP-bd UniProtKB/TrEMBL
  ABCA UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
NCBI Gene Abca13 ENTREZGENE
PANTHER ATP-BINDING CASSETTE SUB-FAMILY A MEMBER 13 UniProtKB/TrEMBL
  PTHR19229 UniProtKB/TrEMBL
Pfam ABC2_membrane_3 UniProtKB/TrEMBL
  ABC_tran UniProtKB/TrEMBL
PROSITE ABC_TRANSPORTER_2 UniProtKB/TrEMBL
SMART AAA UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
UniProt A0A8C2UZI0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C2UZI8_CHILA UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-08-16 Abca13  ATP binding cassette subfamily A member 13    ATP-binding cassette, sub-family A (ABC1), member 13  Symbol and/or name change 5135510 APPROVED