Atp8b3 (ATPase phospholipid transporting 8B3) - Rat Genome Database

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Gene: Atp8b3 (ATPase phospholipid transporting 8B3) Rattus norvegicus
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Symbol: Atp8b3
Name: ATPase phospholipid transporting 8B3
RGD ID: 1307622
Description: Predicted to enable ATPase-coupled intramembrane lipid transporter activity. Predicted to be involved in Golgi organization and phospholipid translocation. Predicted to act upstream of or within binding activity of sperm to zona pellucida and establishment of localization in cell. Predicted to be located in acrosomal vesicle and membrane. Predicted to be active in plasma membrane and trans-Golgi network. Orthologous to human ATP8B3 (ATPase phospholipid transporting 8B3); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: ATPase, aminophospholipid transporter, class I, type 8B, member 3; ATPase, Class I, type 8B, member 3; LOC299616; MGC188630; phospholipid-transporting ATPase IK; probable phospholipid-transporting ATPase IK
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr879,823,496 - 9,846,137 (+)NCBIGRCr8
mRatBN7.279,175,544 - 9,195,449 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl79,175,391 - 9,195,442 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0712,043,764 - 12,063,668 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl712,043,794 - 12,063,650 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0712,211,288 - 12,231,163 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4710,685,983 - 10,705,570 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1710,685,976 - 10,705,327 (+)NCBI
Celera77,357,658 - 7,377,501 (+)NCBICelera
Cytogenetic Map7q11NCBI
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

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. 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.
2. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. GOA pipeline RGD automated data pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:14975727  


Genomics

Comparative Map Data
Atp8b3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr879,823,496 - 9,846,137 (+)NCBIGRCr8
mRatBN7.279,175,544 - 9,195,449 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl79,175,391 - 9,195,442 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0712,043,764 - 12,063,668 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl712,043,794 - 12,063,650 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0712,211,288 - 12,231,163 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4710,685,983 - 10,705,570 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1710,685,976 - 10,705,327 (+)NCBI
Celera77,357,658 - 7,377,501 (+)NCBICelera
Cytogenetic Map7q11NCBI
ATP8B3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38191,782,075 - 1,812,276 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl191,782,075 - 1,812,276 (-)EnsemblGRCh38hg38GRCh38
GRCh37191,782,074 - 1,812,275 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36191,733,074 - 1,763,270 (-)NCBINCBI36Build 36hg18NCBI36
Build 34191,733,075 - 1,763,270NCBI
Celera191,716,184 - 1,746,354 (-)NCBICelera
Cytogenetic Map19p13.3NCBI
HuRef191,553,724 - 1,583,779 (-)NCBIHuRef
CHM1_1191,781,666 - 1,811,878 (-)NCBICHM1_1
T2T-CHM13v2.0191,753,422 - 1,783,592 (-)NCBIT2T-CHM13v2.0
Atp8b3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391080,355,418 - 80,374,987 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1080,355,418 - 80,374,958 (-)EnsemblGRCm39 Ensembl
GRCm381080,519,584 - 80,539,154 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1080,519,584 - 80,539,124 (-)EnsemblGRCm38mm10GRCm38
MGSCv371079,982,330 - 80,001,869 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361079,922,714 - 79,942,253 (-)NCBIMGSCv36mm8
Celera1081,537,386 - 81,556,922 (-)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1039.72NCBI
Atp8b3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554956,222,602 - 6,242,569 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554956,222,764 - 6,242,104 (+)NCBIChiLan1.0ChiLan1.0
ATP8B3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2206,151,863 - 6,183,206 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1195,381,293 - 5,414,240 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v019779,958 - 810,455 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1191,761,039 - 1,792,419 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl191,761,992 - 1,791,878 (-)Ensemblpanpan1.1panPan2
ATP8B3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12057,144,740 - 57,160,402 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2057,148,281 - 57,160,347 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2056,937,609 - 56,952,836 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02057,875,496 - 57,891,405 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.12056,933,299 - 56,948,516 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02057,412,902 - 57,428,134 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02057,614,422 - 57,629,651 (+)NCBIUU_Cfam_GSD_1.0
Atp8b3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118216,806,091 - 216,822,681 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365881,012,233 - 1,028,287 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365881,012,069 - 1,028,113 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ATP8B3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl276,722,247 - 76,745,898 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1276,722,257 - 76,745,899 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2277,402,720 - 77,425,991 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ATP8B3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.161,575,914 - 1,602,798 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660817,220,046 - 7,246,757 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Atp8b3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248286,976,466 - 6,994,267 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248286,976,451 - 6,994,152 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Atp8b3
105 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:78
Count of miRNA genes:71
Interacting mature miRNAs:73
Transcripts:ENSRNOT00000039813
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7144782185Rat
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)766427026029351Rat
9590102Sffal5Serum free fatty acids level QTL 58.620.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)7532901950329019Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7144822433Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
10755438Coatc9Coat color QTL 90coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7352928048529280Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7131962314Rat
10059592Kidm45Kidney mass QTL 453.950.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)7757398552573985Rat
2317047Wbc4White blood cell count QTL 40.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)7135342956Rat
10755440Coatc10Coat color QTL 100coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7749649952496499Rat
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7127829089Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134000259Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7131962314Rat

Markers in Region
BE110037  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.279,195,226 - 9,195,378 (+)MAPPERmRatBN7.2
Rnor_6.0712,063,439 - 12,063,590NCBIRnor6.0
Rnor_5.0712,230,941 - 12,231,092UniSTSRnor5.0
RGSC_v3.4710,705,349 - 10,705,500UniSTSRGSC3.4
Celera77,377,272 - 7,377,423UniSTS
RH 3.4 Map738.4UniSTS
Cytogenetic Map7q11UniSTS


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
nervous system
renal system
reproductive system
respiratory system
9 10 27 113 55 54 24 25 24 6 144 70 93 33 60 30

Sequence


Ensembl Acc Id: ENSRNOT00000039813   ⟹   ENSRNOP00000031877
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl79,176,399 - 9,195,442 (+)Ensembl
Rnor_6.0 Ensembl712,043,794 - 12,063,650 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000114677   ⟹   ENSRNOP00000085902
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl79,175,391 - 9,195,442 (+)Ensembl
RefSeq Acc Id: XM_039080446   ⟹   XP_038936374
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr879,823,496 - 9,846,137 (+)NCBI
mRatBN7.279,175,544 - 9,195,449 (+)NCBI
RefSeq Acc Id: XM_039080447   ⟹   XP_038936375
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr879,823,496 - 9,841,558 (+)NCBI
mRatBN7.279,175,544 - 9,190,876 (+)NCBI
RefSeq Acc Id: XM_039080448   ⟹   XP_038936376
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr879,823,496 - 9,840,834 (+)NCBI
mRatBN7.279,175,544 - 9,190,113 (+)NCBI
RefSeq Acc Id: XM_234937   ⟹   XP_234937
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr879,823,496 - 9,846,137 (+)NCBI
mRatBN7.279,175,544 - 9,195,449 (+)NCBI
Rnor_6.0712,043,764 - 12,063,668 (+)NCBI
Rnor_5.0712,211,288 - 12,231,163 (+)NCBI
RGSC_v3.4710,685,983 - 10,705,570 (+)RGD
Sequence:
RefSeq Acc Id: XP_234937   ⟸   XM_234937
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSRNOP00000031877   ⟸   ENSRNOT00000039813
RefSeq Acc Id: XP_038936374   ⟸   XM_039080446
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038936375   ⟸   XM_039080447
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038936376   ⟸   XM_039080448
- Peptide Label: isoform X4
Ensembl Acc Id: ENSRNOP00000085902   ⟸   ENSRNOT00000114677
Protein Domains
P-type ATPase C-terminal   P-type ATPase N-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZE62-F1-model_v2 AlphaFold D3ZE62 1-1340 view protein structure

Transcriptome

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

Promoters
RGD ID:13695037
Promoter ID:EPDNEW_R5541
Type:initiation region
Name:Atp8b3_1
Description:ATPase phospholipid transporting 8B3
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_6.0712,043,827 - 12,043,887EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307622 AgrOrtholog
BioCyc Gene G2FUF-34947 BioCyc
Ensembl Genes ENSRNOG00000024975 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000039813.6 UniProtKB/TrEMBL
  ENSRNOT00000114677.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.1110.10 UniProtKB/TrEMBL
  3.40.50.1000 UniProtKB/TrEMBL
  Calcium-transporting ATPase, cytoplasmic transduction domain A UniProtKB/TrEMBL
InterPro ATPase_P-typ_ATPase-assoc-dom UniProtKB/TrEMBL
  ATPase_P-typ_cyto_domN UniProtKB/TrEMBL
  ATPase_P-typ_ion-transptr UniProtKB/TrEMBL
  ATPase_P-typ_P_site UniProtKB/TrEMBL
  ATPase_P-typ_Plipid-transl UniProtKB/TrEMBL
  ATPase_P-typ_TM_dom UniProtKB/TrEMBL
  HAD-like_sf UniProtKB/TrEMBL
  HAD_sf UniProtKB/TrEMBL
  P-type_ATPase_N UniProtKB/TrEMBL
  P_typ_ATPase_c UniProtKB/TrEMBL
  P_typ_ATPase_HD_dom UniProtKB/TrEMBL
NCBI Gene 299616 ENTREZGENE
PANTHER PROBABLE PHOSPHOLIPID-TRANSPORTING ATPASE UniProtKB/TrEMBL
  PTHR24092:SF78 UniProtKB/TrEMBL
Pfam Cation_ATPase UniProtKB/TrEMBL
  PhoLip_ATPase_C UniProtKB/TrEMBL
  PhoLip_ATPase_N UniProtKB/TrEMBL
PhenoGen Atp8b3 PhenoGen
PRINTS CATATPASE UniProtKB/TrEMBL
PROSITE ATPASE_E1_E2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000024975 RatGTEx
Superfamily-SCOP ATPase_cation_domN UniProtKB/TrEMBL
  HAD-like_dom UniProtKB/TrEMBL
  SSF81653 UniProtKB/TrEMBL
  SSF81665 UniProtKB/TrEMBL
UniProt A0A8I6GEF5_RAT UniProtKB/TrEMBL
  D3ZE62_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-17 Atp8b3  ATPase phospholipid transporting 8B3  Atp8b3  ATPase, aminophospholipid transporter, class I, type 8B, member 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-07-30 Atp8b3  ATPase, aminophospholipid transporter, class I, type 8B, member 3  Atp8b3  ATPase, Class I, type 8B, member 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Atp8b3  ATPase, Class I, type 8B, member 3   Atp8b3_predicted  ATPase, Class I, type 8B, member 3 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Atp8b3_predicted  ATPase, Class I, type 8B, member 3 (predicted)      Symbol and Name status set to approved 70820 APPROVED