Atp8a2 (ATPase phospholipid transporting 8A2) - Rat Genome Database

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Gene: Atp8a2 (ATPase phospholipid transporting 8A2) Rattus norvegicus
Analyze
Symbol: Atp8a2
Name: ATPase phospholipid transporting 8A2
RGD ID: 1594597
Description: Predicted to enable ATPase-coupled intramembrane lipid transporter activity. Acts upstream of or within neuron projection development. Predicted to be located in Golgi apparatus and nucleoplasm. Predicted to be part of phospholipid-translocating ATPase complex. Predicted to be active in plasma membrane. Human ortholog(s) of this gene implicated in cerebellar ataxia, mental retardation and dysequlibrium syndrome. Orthologous to human ATP8A2 (ATPase phospholipid transporting 8A2); INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 17beta-estradiol 3-benzoate.
Type: protein-coding
RefSeq Status: MODEL
Also known as: ATPase, aminophospholipid transporter, class I, type 8A, member 2; LOC691889; phospholipid-transporting ATPase IB; similar to ATPase, aminophospholipid transporter-like, class I, type 8A, member 2
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21533,817,309 - 34,350,193 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1533,819,755 - 34,350,223 (-)Ensembl
Rnor_6.01539,955,689 - 40,488,737 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1540,000,322 - 40,428,800 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01543,781,312 - 44,300,886 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41538,759,902 - 39,271,237 (-)NCBIRGSC3.4rn4RGSC3.4
Celera1533,526,116 - 34,051,833 (-)NCBICelera
Cytogenetic Map15p12NCBI
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

Additional References at PubMed
PMID:1634998   PMID:20947505   PMID:22912588   PMID:24413176  


Genomics

Comparative Map Data
Atp8a2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21533,817,309 - 34,350,193 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1533,819,755 - 34,350,223 (-)Ensembl
Rnor_6.01539,955,689 - 40,488,737 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1540,000,322 - 40,428,800 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01543,781,312 - 44,300,886 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41538,759,902 - 39,271,237 (-)NCBIRGSC3.4rn4RGSC3.4
Celera1533,526,116 - 34,051,833 (-)NCBICelera
Cytogenetic Map15p12NCBI
ATP8A2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1325,371,974 - 26,025,851 (+)EnsemblGRCh38hg38GRCh38
GRCh381325,371,974 - 26,025,851 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371325,946,112 - 26,599,989 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361324,844,209 - 25,493,420 (+)NCBINCBI36hg18NCBI36
Build 341324,941,114 - 25,492,996NCBI
Celera137,010,413 - 7,663,625 (+)NCBI
Cytogenetic Map13q12.13NCBI
HuRef136,857,229 - 7,413,507 (+)NCBIHuRef
CHM1_11325,914,386 - 26,563,571 (+)NCBICHM1_1
LOC108168164
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391460,423,607 - 60,434,657 (-)NCBIGRCm39mm39
GRCm381460,186,158 - 60,197,210 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1459,638,540 - 60,197,179 (-)EnsemblGRCm38mm10GRCm38
MGSCv371460,266,578 - 60,705,671 (-)NCBIGRCm37mm9NCBIm37
MGSCv361458,601,851 - 59,040,944 (-)NCBImm8
Celera1457,450,161 - 57,876,764 (-)NCBICelera
Cytogenetic Map14D1NCBI
ATP8A2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11325,111,454 - 25,668,526 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1325,111,653 - 25,662,668 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0136,663,888 - 7,319,094 (+)NCBIMhudiblu_PPA_v0panPan3
ATP8A2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12513,490,550 - 14,066,942 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2513,495,970 - 14,066,513 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2513,563,109 - 14,143,498 (-)NCBI
ROS_Cfam_1.02513,628,570 - 14,196,913 (-)NCBI
ROS_Cfam_1.0 Ensembl2513,628,575 - 14,196,698 (-)Ensembl
UMICH_Zoey_3.12513,511,708 - 14,079,496 (-)NCBI
UNSW_CanFamBas_1.02513,507,713 - 14,081,688 (-)NCBI
UU_Cfam_GSD_1.02513,555,345 - 14,129,847 (-)NCBI
LOC101972040
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945115,687,558 - 116,313,133 (-)NCBI
SpeTri2.0NW_004936688299,831 - 925,444 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOC100523747
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl113,278,071 - 3,793,881 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1113,277,395 - 3,793,881 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2112,576,600 - 2,969,328 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ATP8A2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.134,747,744 - 5,378,598 (+)NCBIChlSab1.1chlSab2
ChlSab1.134,747,744 - 5,378,598 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl34,747,882 - 5,323,235 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605739,047,880 - 39,695,138 (-)NCBIVero_WHO_p1.0
Atp8a2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462477612,474,442 - 13,126,237 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
D15Got23  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21534,131,309 - 34,131,411 (+)MAPPERmRatBN7.2
Rnor_6.01540,269,617 - 40,269,718NCBIRnor6.0
Rnor_5.01544,083,263 - 44,083,364UniSTSRnor5.0
Celera1533,834,224 - 33,834,325UniSTS
RH 3.4 Map15230.5RGD
RH 3.4 Map15230.5UniSTS
Cytogenetic Map15p12UniSTS
D15Rat87  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21533,911,771 - 33,911,930 (+)MAPPERmRatBN7.2
Rnor_6.01540,049,394 - 40,049,552NCBIRnor6.0
Rnor_5.01543,867,742 - 43,867,900UniSTSRnor5.0
RGSC_v3.41538,847,197 - 38,847,355UniSTSRGSC3.4
Celera1533,619,835 - 33,619,995UniSTS
Cytogenetic Map15p12UniSTS
RH144321  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21534,054,490 - 34,054,644 (+)MAPPERmRatBN7.2
Rnor_6.01540,195,468 - 40,195,621NCBIRnor6.0
Rnor_5.01544,009,114 - 44,009,267UniSTSRnor5.0
RGSC_v3.41538,995,971 - 38,996,124UniSTSRGSC3.4
Celera1533,762,294 - 33,762,447UniSTS
RH 3.4 Map15218.3UniSTS
Cytogenetic Map15p12UniSTS
BI277866  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21533,826,243 - 33,826,397 (+)MAPPERmRatBN7.2
Rnor_6.01539,964,624 - 39,964,777NCBIRnor6.0
Rnor_5.01543,782,761 - 43,782,914UniSTSRnor5.0
RGSC_v3.41538,760,040 - 38,760,193UniSTSRGSC3.4
Celera1533,535,051 - 33,535,204UniSTS
RH 3.4 Map15217.5UniSTS
Cytogenetic Map15p12UniSTS
BQ210369  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21533,837,473 - 33,837,683 (+)MAPPERmRatBN7.2
Rnor_6.01539,975,854 - 39,976,063NCBIRnor6.0
Rnor_5.01543,793,855 - 43,794,064UniSTSRnor5.0
RGSC_v3.41538,771,134 - 38,771,343UniSTSRGSC3.4
Celera1533,546,313 - 33,546,522UniSTS
RH 3.4 Map15217.7UniSTS
Cytogenetic Map15p12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
8552920Pigfal8Plasma insulin-like growth factor 1 level QTL 83blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)15134723002Rat
8694361Abfw6Abdominal fat weight QTL 610.20.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)15134723002Rat
9589149Insul29Insulin level QTL 299.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)15134723002Rat
731170Pur3Proteinuria QTL 32.30.0005urine protein amount (VT:0005160)urine protein excretion rate (CMO:0000759)15141686771Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15142356671Rat
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15155302115Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1530632945306329Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15226636846921453Rat
1582251Gluco24Glucose level QTL 243.20.0008blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)15553075650530756Rat
631273Lecl2Lens clarity QTL 20.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)151059608955596089Rat
2300167Bmd63Bone mineral density QTL 635.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2300173Bmd62Bone mineral density QTL 6212.80.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2293688Bss29Bone structure and strength QTL 295.310.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)151111114256111142Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151249614165205939Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151672552880672115Rat
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151736289773690657Rat
631550Bw7Body weight QTL 73.6body mass (VT:0001259)body weight (CMO:0000012)151985656634924750Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)151985656646187442Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152211793367117933Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)152280624098288169Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)152280624098288169Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)152280624098288169Rat
1582214Stl21Serum triglyceride level QTL 213.10.022blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)152803066582262678Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)152803066582262678Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
1582242Gluco28Glucose level QTL 283.30.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)152803066582262678Rat
1582244Bw79Body weight QTL 7940.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
2293691Bmd37Bone mineral density QTL 376.60.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)153361105871477291Rat
2293686Bmd36Bone mineral density QTL 367.40.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)153361105871477291Rat
1598828Glom14Glomerulus QTL 142.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)153405413979054139Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:71
Count of miRNA genes:59
Interacting mature miRNAs:63
Transcripts:ENSRNOT00000011451, ENSRNOT00000051937
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


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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 58 7
Low 3 26 50 34 18 34 1 1 14 24 20 7 1
Below cutoff 14 5 5 1 5 7 8 2 11 14 3 7

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_003751492 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_003752815 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006221968 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006221970 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006221972 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006252160 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006252164 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006252165 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769169 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769177 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770789 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770790 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599897 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039093993 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039093994 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039093995 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039093996 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039093997 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039093998 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039093999 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094000 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094001 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094002 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094003 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094004 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094005 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC126002 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000270 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000011451   ⟹   ENSRNOP00000011451
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1533,862,101 - 34,290,481 (-)Ensembl
Rnor_6.0 Ensembl1540,000,322 - 40,428,800 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000099280   ⟹   ENSRNOP00000080718
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1533,825,941 - 34,350,223 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000101476   ⟹   ENSRNOP00000083020
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1533,862,101 - 34,290,481 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000115632   ⟹   ENSRNOP00000092049
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1533,819,755 - 34,253,413 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000116305   ⟹   ENSRNOP00000095034
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1533,831,333 - 34,303,385 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000117449   ⟹   ENSRNOP00000097212
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1534,209,871 - 34,350,047 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000120113   ⟹   ENSRNOP00000087237
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1533,819,755 - 34,334,933 (-)Ensembl
RefSeq Acc Id: XM_003751492   ⟹   XP_003751540
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21533,817,309 - 34,328,616 (-)NCBI
Rnor_6.01539,955,689 - 40,466,848 (-)NCBI
Rnor_5.01543,781,312 - 44,300,886 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039093993   ⟹   XP_038949921
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21533,817,309 - 34,328,616 (-)NCBI
RefSeq Acc Id: XM_039093994   ⟹   XP_038949922
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21533,817,309 - 34,304,389 (-)NCBI
RefSeq Acc Id: XM_039093995   ⟹   XP_038949923
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21533,817,309 - 34,280,483 (-)NCBI
RefSeq Acc Id: XM_039093996   ⟹   XP_038949924
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21533,817,309 - 34,350,193 (-)NCBI
RefSeq Acc Id: XM_039093997   ⟹   XP_038949925
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21533,817,309 - 34,350,193 (-)NCBI
RefSeq Acc Id: XM_039093998   ⟹   XP_038949926
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21533,817,309 - 34,318,397 (-)NCBI
RefSeq Acc Id: XM_039093999   ⟹   XP_038949927
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21533,817,309 - 34,350,193 (-)NCBI
RefSeq Acc Id: XM_039094000   ⟹   XP_038949928
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21533,817,309 - 34,303,379 (-)NCBI
RefSeq Acc Id: XM_039094001   ⟹   XP_038949929
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21533,817,309 - 34,255,049 (-)NCBI
RefSeq Acc Id: XM_039094002   ⟹   XP_038949930
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21533,817,309 - 34,328,998 (-)NCBI
RefSeq Acc Id: XM_039094003   ⟹   XP_038949931
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21533,817,309 - 34,328,616 (-)NCBI
RefSeq Acc Id: XM_039094004   ⟹   XP_038949932
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21534,081,745 - 34,328,616 (-)NCBI
RefSeq Acc Id: XM_039094005   ⟹   XP_038949933
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21534,143,714 - 34,328,616 (-)NCBI
Reference Sequences
RefSeq Acc Id: XP_003751540   ⟸   XM_003751492
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSRNOP00000011451   ⟸   ENSRNOT00000011451
RefSeq Acc Id: XP_038949927   ⟸   XM_039093999
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038949924   ⟸   XM_039093996
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038949925   ⟸   XM_039093997
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038949930   ⟸   XM_039094002
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038949931   ⟸   XM_039094003
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038949921   ⟸   XM_039093993
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038949926   ⟸   XM_039093998
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038949922   ⟸   XM_039093994
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038949928   ⟸   XM_039094000
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038949923   ⟸   XM_039093995
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038949929   ⟸   XM_039094001
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038949932   ⟸   XM_039094004
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038949933   ⟸   XM_039094005
- Peptide Label: isoform X8
RefSeq Acc Id: ENSRNOP00000097212   ⟸   ENSRNOT00000117449
RefSeq Acc Id: ENSRNOP00000095034   ⟸   ENSRNOT00000116305
RefSeq Acc Id: ENSRNOP00000083020   ⟸   ENSRNOT00000101476
RefSeq Acc Id: ENSRNOP00000087237   ⟸   ENSRNOT00000120113
RefSeq Acc Id: ENSRNOP00000080718   ⟸   ENSRNOT00000099280
RefSeq Acc Id: ENSRNOP00000092049   ⟸   ENSRNOT00000115632
Protein Domains
PhoLip_ATPase_C   PhoLip_ATPase_N

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN-Lx/CubMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BUF/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
F344/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/FarMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
HXB10/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEXF10A/StmMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: Rnor_5.0
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
15 43977841 43977842 C T snv SDLEF7/Barth (UDEL)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1594597 AgrOrtholog
Ensembl Genes ENSRNOG00000008053 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000011451 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000080718 ENTREZGENE
  ENSRNOP00000087237 ENTREZGENE
  ENSRNOP00000092049 ENTREZGENE
  ENSRNOP00000095034 ENTREZGENE
Ensembl Transcript ENSRNOT00000011451 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000099280 ENTREZGENE
  ENSRNOT00000115632 ENTREZGENE
  ENSRNOT00000116305 ENTREZGENE
  ENSRNOT00000120113 ENTREZGENE
Gene3D-CATH 3.40.1110.10 UniProtKB/TrEMBL
  3.40.50.1000 UniProtKB/TrEMBL
InterPro ATPase_P-typ_cyto_domN UniProtKB/TrEMBL
  ATPase_P-typ_P_site UniProtKB/TrEMBL
  ATPase_P-typ_Plipid-transl UniProtKB/TrEMBL
  ATPase_P-typ_TM_dom UniProtKB/TrEMBL
  ATPase_P-typ_transduc_dom_A UniProtKB/TrEMBL
  Cation_transp_P_typ_ATPase UniProtKB/TrEMBL
  HAD-like_dom UniProtKB/TrEMBL
  HAD-like_sf UniProtKB/TrEMBL
  P-type_ATPase_N UniProtKB/TrEMBL
  P_typ_ATPase_c UniProtKB/TrEMBL
  P_typ_ATPase_HD_dom UniProtKB/TrEMBL
NCBI Gene 691889 ENTREZGENE
PANTHER PTHR24092 UniProtKB/TrEMBL
Pfam PhoLip_ATPase_C UniProtKB/TrEMBL
  PhoLip_ATPase_N UniProtKB/TrEMBL
PhenoGen Atp8a2 PhenoGen
PROSITE ATPASE_E1_E2 UniProtKB/TrEMBL
Superfamily-SCOP ATPase_cation_domN UniProtKB/TrEMBL
  HAD-like_dom UniProtKB/TrEMBL
  SSF81653 UniProtKB/TrEMBL
  SSF81665 UniProtKB/TrEMBL
TIGRFAMs ATPase-Plipid UniProtKB/TrEMBL
  ATPase_P-type UniProtKB/TrEMBL
UniProt D4A3X6_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-17 Atp8a2  ATPase phospholipid transporting 8A2  Atp8a2  ATPase, aminophospholipid transporter, class I, type 8A, member 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2014-09-17 Atp8a2  ATPase, aminophospholipid transporter, class I, type 8A, member 2  LOC691889  similar to ATPase, aminophospholipid transporter-like, class I, type 8A, member 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC691889  similar to ATPase, aminophospholipid transporter-like, class I, type 8A, member 2  LOC682925  similar to ATPase, aminophospholipid transporter-like, Class I, type 8A, member 2  Data Merged 1643240 APPROVED
2006-11-20 LOC691889  similar to ATPase, aminophospholipid transporter-like, class I, type 8A, member 2      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-20 LOC682925  similar to ATPase, aminophospholipid transporter-like, Class I, type 8A, member 2      Symbol and Name status set to provisional 70820 PROVISIONAL