Atp13a1 (ATPase type 13A1) - Rat Genome Database
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Gene: Atp13a1 (ATPase type 13A1) Mus musculus
Analyze
Symbol: Atp13a1
Name: ATPase type 13A1
RGD ID: 1550377
MGI Page MGI
Description: Predicted to have ATP binding activity; ATPase activity; and metal ion binding activity. Predicted to be involved in cellular calcium ion homeostasis. Predicted to localize to endoplasmic reticulum and integral component of membrane. Orthologous to human ATP13A1 (ATPase 13A1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 4,4'-diaminodiphenylmethane; acrylamide.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: Atp; Atp13a; ca; cation-transporting ATPase 2; catp; Cgi15; Cgi152; manganese-transporting ATPase 13A1; probable cation-transporting ATPase 13A1
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39870,243,813 - 70,260,399 (+)NCBIGRCm39mm39
GRCm38869,791,163 - 69,807,749 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl869,791,163 - 69,807,749 (+)EnsemblGRCm38mm10GRCm38
MGSCv37872,315,062 - 72,331,648 (+)NCBIGRCm37mm9NCBIm37
MGSCv36872,720,223 - 72,736,734 (+)NCBImm8
Celera872,342,175 - 72,358,761 (+)NCBICelera
Cytogenetic Map8B3.3NCBI
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

Cellular Component

Molecular Function

References

References - curated
1. MGD data from the GO Consortium
2. RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:10922068   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:15368895   PMID:15381061   PMID:15782199   PMID:16141072  
PMID:16141073   PMID:21267068   PMID:21873635   PMID:26848562   PMID:29407413   PMID:32325033  


Genomics

Comparative Map Data
Atp13a1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39870,243,813 - 70,260,399 (+)NCBIGRCm39mm39
GRCm38869,791,163 - 69,807,749 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl869,791,163 - 69,807,749 (+)EnsemblGRCm38mm10GRCm38
MGSCv37872,315,062 - 72,331,648 (+)NCBIGRCm37mm9NCBIm37
MGSCv36872,720,223 - 72,736,734 (+)NCBImm8
Celera872,342,175 - 72,358,761 (+)NCBICelera
Cytogenetic Map8B3.3NCBI
ATP13A1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1919,645,198 - 19,663,676 (-)EnsemblGRCh38hg38GRCh38
GRCh381919,645,198 - 19,663,676 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371919,756,007 - 19,774,512 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361919,617,009 - 19,633,925 (-)NCBINCBI36hg18NCBI36
Build 341919,617,008 - 19,633,925NCBI
Celera1919,660,082 - 19,678,574 (-)NCBI
Cytogenetic Map19p13.11NCBI
HuRef1919,318,428 - 19,336,925 (-)NCBIHuRef
CHM1_11919,757,093 - 19,775,596 (-)NCBICHM1_1
Atp13a1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01621,364,087 - 21,380,142 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1621,364,101 - 21,380,331 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01621,278,076 - 21,294,131 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41620,100,481 - 20,116,536 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11620,100,478 - 20,117,029 (-)NCBI
Celera1619,804,187 - 19,820,230 (-)NCBICelera
Cytogenetic Map16p14NCBI
Atp13a1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555242,365,646 - 2,378,253 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555242,365,605 - 2,378,459 (+)NCBIChiLan1.0ChiLan1.0
ATP13A1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11920,078,314 - 20,095,715 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1920,078,319 - 20,095,721 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01919,082,441 - 19,100,915 (-)NCBIMhudiblu_PPA_v0panPan3
ATP13A1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2043,618,589 - 43,635,000 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12043,618,574 - 43,634,999 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Atp13a1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365961,842,469 - 1,859,379 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ATP13A1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl258,267,719 - 58,296,258 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1258,267,489 - 58,285,383 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2258,410,649 - 58,428,080 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ATP13A1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1618,103,954 - 18,122,230 (-)NCBI
ChlSab1.1 Ensembl618,103,942 - 18,115,580 (-)Ensembl
Atp13a1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046249082,369,302 - 2,382,364 (-)NCBI

Position Markers
Atp13a1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map8B3.3UniSTS
cM Map8 UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1558870Eae36_mexperimental allergic encephalomyelitis susceptibility 36 (mouse)Not determined81472316071045600Mouse
1357811Orq3_movulation rate QTL 3 (mouse)Not determined83201654471287993Mouse
4141437W10q14_mweight 10 weeks QTL 14 (mouse)Not determined3201654471287993Mouse
4141172W6q9_mweight 6 weeks QTL 9 (mouse)Not determined3201654471287993Mouse
4140966Egq12_mearly growth QTL 12 (mouse)Not determined3201654471287993Mouse
4140967Bmd39_mbone mineral density 39 (mouse)Not determined832016544117238700Mouse
1558875Eae31_mexperimental allergic encephalomyelitis susceptibility 31 (mouse)Not determined834642776114837007Mouse
1301013Capsq4_mcapsaicin sensitivity related QTL 4 (mouse)Not determined83616300092728652Mouse
27226754Femd6_mfemur midshaft diameter 6, 10 week (mouse)837400000109600000Mouse
12904744Carcdq1_mcardiac collagen deposition QTL 1 (mouse)83970925694689598Mouse
1301544Iba3_minduction of brown adipocytes 3 (mouse)Not determined84429488078295025Mouse
1301717Adip4_madiposity 4 (mouse)Not determined84763703081637146Mouse
10766453Char11_mP. chabaudi malaria resistance QTL 11 (mouse)84763703081637146Mouse
1301441Skull11_mskull morphology 11 (mouse)Not determined84773713481737254Mouse
1357715Alaa3_malopecia areata 3 (mouse)Not determined84879293982793021Mouse
14746987Manh64_mmandible shape 64 (mouse)85005330684053306Mouse
14747005Mancz7_mmandible centroid size 7 (mouse)85005330684053306Mouse
14700686Civq3_mcerebral infarct volume QTL 3 (mouse)85188219185882191Mouse
1301506Aevm1_mautoimmune extremity vasculitis in MRL mice 1 (mouse)Not determined85428781788287993Mouse
1301952Im3_mimmunoregulatory 3 (mouse)Not determined85470661488706763Mouse
10412287Carg3_mCandida albicans resistance gene 3 (mouse)Not determined85554502889545028Mouse
11353828Gf7_mgonadal fat pad weight 7 (mouse)85820147992201479Mouse
10043975Obq31_mobesity QTL 31 (mouse)Not determined85840977692409776Mouse
1301688Orch6_mautoimmune orchitis resistance 6 (mouse)Not determined86078685094786976Mouse
4141285Tgq18_mtriglyceride QTL 18 (mouse)Not determined6346010797460107Mouse
4141797Skmw16_mskeletal muscle weight 16 (mouse)Not determined86393954797939696Mouse
1357787Vtbt5_mvertebral trabecular bone trait 5 (mouse)Not determined86535776899357920Mouse
10043992Hbnr11_mHeligmosomoides bakeri nematode resistance 11 (mouse)Not determined86560020799600347Mouse
10766466Char12_mP. chabaudi malaria resistance QTL 12 (mouse)86826982782600347Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:181
Count of miRNA genes:166
Interacting mature miRNAs:174
Transcripts:ENSMUST00000034326
Prediction methods: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.


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_133224 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006509564 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030243318 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030243319 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_003947239 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB035381 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC157564 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK052057 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK083373 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK173270 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK177600 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK180127 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK180971 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK182906 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK185351 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK197538 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK201015 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK203422 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC022689 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC049817 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC078635 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC138721 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC138722 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466569 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000034326   ⟹   ENSMUSP00000034326
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl869,791,163 - 69,807,749 (+)Ensembl
RefSeq Acc Id: ENSMUST00000238217
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl869,796,970 - 69,799,428 (+)Ensembl
RefSeq Acc Id: ENSMUST00000238316   ⟹   ENSMUSP00000158602
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl869,798,890 - 69,803,644 (+)Ensembl
RefSeq Acc Id: ENSMUST00000238353
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl869,797,089 - 69,798,453 (+)Ensembl
RefSeq Acc Id: ENSMUST00000238442
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl869,798,396 - 69,807,745 (+)Ensembl
RefSeq Acc Id: ENSMUST00000238453
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl869,791,250 - 69,807,745 (+)Ensembl
RefSeq Acc Id: ENSMUST00000238491
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl869,791,271 - 69,807,746 (+)Ensembl
RefSeq Acc Id: ENSMUST00000238550
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl869,806,281 - 69,807,103 (+)Ensembl
RefSeq Acc Id: ENSMUST00000238646
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl869,799,411 - 69,800,424 (+)Ensembl
RefSeq Acc Id: ENSMUST00000238648
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl869,805,304 - 69,806,080 (+)Ensembl
RefSeq Acc Id: ENSMUST00000238710
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl869,796,953 - 69,798,561 (+)Ensembl
RefSeq Acc Id: NM_133224   ⟹   NP_573487
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39870,243,813 - 70,260,399 (+)NCBI
GRCm38869,791,163 - 69,807,749 (+)ENTREZGENE
MGSCv37872,315,062 - 72,331,648 (+)RGD
Celera872,342,175 - 72,358,761 (+)RGD
cM Map8 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006509564   ⟹   XP_006509627
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39870,243,868 - 70,260,399 (+)NCBI
GRCm38869,791,218 - 69,807,749 (+)NCBI
Sequence:
RefSeq Acc Id: XM_030243318   ⟹   XP_030099178
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39870,243,888 - 70,260,399 (+)NCBI
GRCm38869,791,238 - 69,807,749 (+)NCBI
Sequence:
RefSeq Acc Id: XM_030243319   ⟹   XP_030099179
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39870,246,399 - 70,260,399 (+)NCBI
GRCm38869,793,749 - 69,807,749 (+)NCBI
Sequence:
RefSeq Acc Id: XR_003947239
RefSeq Status:
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39870,243,868 - 70,260,399 (+)NCBI
GRCm38869,791,218 - 69,807,749 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_573487   ⟸   NM_133224
- UniProtKB: Q9EPE9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006509627   ⟸   XM_006509564
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_030099178   ⟸   XM_030243318
- Peptide Label: isoform X2
RefSeq Acc Id: XP_030099179   ⟸   XM_030243319
- Peptide Label: isoform X3
RefSeq Acc Id: ENSMUSP00000034326   ⟸   ENSMUST00000034326
RefSeq Acc Id: ENSMUSP00000158602   ⟸   ENSMUST00000238316

Promoters
RGD ID:8667241
Promoter ID:EPDNEW_M11652
Type:multiple initiation site
Name:Atp13a1_1
Description:Mus musculus ATPase type 13A1 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38869,791,237 - 69,791,297EPDNEW
RGD ID:6842812
Promoter ID:MM_KWN:54636
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   3T3L1_Day6,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:ENSMUST00000093467,   NM_133224
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36872,314,256 - 72,315,192 (+)MPROMDB
RGD ID:6848260
Promoter ID:MM_ACW:47783
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_2Hour,   BoneMarrow_4Hour,   Kidney
Transcripts:ATP13A1.JSEP07-UNSPLICED
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36872,329,194 - 72,329,694 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2180801 AgrOrtholog
Ensembl Genes ENSMUSG00000031862 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000034326 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000158602 UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000034326 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000238316 UniProtKB/TrEMBL
  ENSMUST00000238453 ENTREZGENE
Gene3D-CATH 3.40.1110.10 UniProtKB/Swiss-Prot
  3.40.50.1000 UniProtKB/Swiss-Prot
InterPro ATPase_P-typ_cyto_dom_N UniProtKB/Swiss-Prot
  ATPase_P-typ_P_site UniProtKB/Swiss-Prot
  ATPase_P-typ_TM_dom_sf UniProtKB/Swiss-Prot
  ATPase_P-typ_transduc_dom_A_sf UniProtKB/Swiss-Prot
  HAD-like_sf UniProtKB/Swiss-Prot
  HAD_sf UniProtKB/Swiss-Prot
  P-type_TPase_V UniProtKB/Swiss-Prot
  P_typ_ATPase UniProtKB/Swiss-Prot
KEGG Report mmu:170759 UniProtKB/Swiss-Prot
MGD MGI:2180801 ENTREZGENE
NCBI Gene 170759 ENTREZGENE
PhenoGen Atp13a1 PhenoGen
PROSITE ATPASE_E1_E2 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF56784 UniProtKB/Swiss-Prot
  SSF81653 UniProtKB/Swiss-Prot
  SSF81660 UniProtKB/Swiss-Prot
  SSF81665 UniProtKB/Swiss-Prot
TIGRFAMs ATPase_P-type UniProtKB/Swiss-Prot
  P-ATPase-V UniProtKB/Swiss-Prot
UniGene Mm.186066 ENTREZGENE
UniProt A0A571BD32_MOUSE UniProtKB/TrEMBL
  AT131_MOUSE UniProtKB/Swiss-Prot
  Q810K8_MOUSE UniProtKB/TrEMBL
  Q9EPE9 ENTREZGENE
UniProt Secondary B2RS54 UniProtKB/Swiss-Prot