Lrp8 (LDL receptor related protein 8) - Rat Genome Database
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Lrp8 (LDL receptor related protein 8) Rattus norvegicus
Analyze
Symbol: Lrp8
Name: LDL receptor related protein 8
RGD ID: 1305729
Description: Exhibits high-density lipoprotein particle binding activity and kinesin binding activity. Involved in several processes, including cellular response to cholesterol; cerebral cortex development; and response to drug. Localizes to several cellular components, including microtubule associated complex; neuronal cell body; and postsynaptic density. Human ortholog(s) of this gene implicated in Alzheimer's disease; coronary artery disease; dementia; myocardial infarction; and schizophrenia. Orthologous to human LRP8 (LDL receptor related protein 8); PARTICIPATES IN altered Reelin signaling pathway; Reelin signaling pathway; INTERACTS WITH (+)-schisandrin B; bisphenol A; endosulfan.
Type: protein-coding
RefSeq Status: MODEL
Also known as: LOC362558; low density lipoprotein receptor-related protein 8, apolipoprotein e receptor; low-density lipoprotein receptor-related protein 8
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25122,563,468 - 122,635,434 (+)NCBI
Rnor_6.0 Ensembl5127,404,450 - 127,476,641 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.05127,404,348 - 127,476,636 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.05131,252,497 - 131,324,785 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45128,905,612 - 128,975,702 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.15128,910,685 - 128,980,029 (+)NCBI
Celera5121,304,991 - 121,373,312 (+)NCBICelera
Cytogenetic Map5q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-butoxyethanol  (ISO)
2-hydroxypropanoic acid  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
5-fluorouracil  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
antirheumatic drug  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[e]pyrene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
carbon nanotube  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
crotonaldehyde  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
dicrotophos  (ISO)
Diisodecyl phthalate  (ISO)
dioxygen  (ISO)
disulfiram  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
endosulfan  (EXP)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
fipronil  (EXP)
flusilazole  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
genistein  (ISO)
hexaconazole  (ISO)
indometacin  (ISO)
leflunomide  (ISO)
manganese(II) chloride  (ISO)
mercury dichloride  (EXP)
methapyrilene  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
methylparaben  (ISO)
N-ethyl-N-nitrosourea  (ISO)
nickel atom  (ISO)
O-methyleugenol  (ISO)
panobinostat  (ISO)
paracetamol  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
potassium dichromate  (ISO)
progesterone  (ISO)
rac-lactic acid  (ISO)
resveratrol  (ISO)
sarin  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sulforaphane  (ISO)
Tanshinone I  (ISO)
tetrachloromethane  (EXP,ISO)
thapsigargin  (ISO)
triadimefon  (ISO)
trichostatin A  (ISO)
tunicamycin  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vincristine  (ISO)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Beffert U, etal., Neuron. 2005 Aug 18;47(4):567-79.
2. Helbecque N, etal., Neurobiol Aging. 2009 Feb;30(2):266-71. Epub 2007 Jul 5.
3. Hosoda A, etal., Biosci Biotechnol Biochem. 2010;74(3):677-9. Epub 2010 Mar 7.
4. Jossin Y, etal., Cereb Cortex 2003 Jun;13(6):627-33.
5. Kim DH, etal., J Biol Chem. 1996 Apr 5;271(14):8373-80.
6. Kinoshita M, etal., J Biochem. 1985 Jun;97(6):1803-6.
7. Kosacka J, etal., Neuroscience. 2009 Aug 18;162(2):282-91. Epub 2009 May 3.
8. Lieb W, etal., J Mol Med. 2008 Oct;86(10):1163-70. Epub 2008 Jul 1.
9. Ma SL, etal., Neurosci Lett. 2002 Nov 8;332(3):216-8.
10. MGD data from the GO Consortium
11. Myant NB Proc Biol Sci. 2010 Feb 7;277(1680):345-51. Epub 2009 Oct 21.
12. OMIM Disease Annotation Pipeline
13. Pathak A, etal., Cereb Cortex. 2010 Apr 5.
14. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
15. Posse De Chaves EI, etal., J Biol Chem. 2000 Jun 30;275(26):19883-90.
16. Quattrocchi CC, etal., Science 2003 Aug 1;301(5633):649-53.
17. RGD automated data pipeline
18. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
19. RGD automated import pipeline for gene-chemical interactions
20. RGD comprehensive gene curation
21. Romay-Penabad Z, etal., Blood. 2011 Jan 27;117(4):1408-14. Epub 2010 Nov 30.
22. Shen GQ, etal., Am J Hum Genet. 2007 Oct;81(4):780-91. Epub 2007 Aug 31.
23. Stockinger W, etal., J Biol Chem. 1998 Nov 27;273(48):32213-21.
24. Verbrugghe P, etal., Am J Med Genet B Neuropsychiatr Genet. 2012 Jun;159B(4):392-404. doi: 10.1002/ajmg.b.32042. Epub 2012 Mar 14.
25. Verhey KJ, etal., J Cell Biol. 2001 Mar 5;152(5):959-70.
Additional References at PubMed
PMID:10571240   PMID:11369809   PMID:12526740   PMID:15950758   PMID:16227578   PMID:17314095   PMID:17330141   PMID:18089558   PMID:18778775   PMID:19946888   PMID:20711475   PMID:21852430  
PMID:22761431   PMID:23382219   PMID:25233900   PMID:25340851   PMID:27653801   PMID:29336888  


Genomics

Comparative Map Data
Lrp8
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25122,563,468 - 122,635,434 (+)NCBI
Rnor_6.0 Ensembl5127,404,450 - 127,476,641 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.05127,404,348 - 127,476,636 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.05131,252,497 - 131,324,785 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45128,905,612 - 128,975,702 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.15128,910,685 - 128,980,029 (+)NCBI
Celera5121,304,991 - 121,373,312 (+)NCBICelera
Cytogenetic Map5q34NCBI
LRP8
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl153,242,364 - 53,328,469 (-)EnsemblGRCh38hg38GRCh38
GRCh38153,242,364 - 53,328,070 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37153,708,036 - 53,793,742 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36153,483,800 - 53,566,409 (-)NCBINCBI36hg18NCBI36
Celera151,999,058 - 52,081,130 (-)NCBI
Cytogenetic Map1p32.3NCBI
HuRef151,823,713 - 51,909,108 (-)NCBIHuRef
CHM1_1153,825,039 - 53,910,558 (-)NCBICHM1_1
Lrp8
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394107,659,337 - 107,734,037 (+)NCBIGRCm39mm39
GRCm39 Ensembl4107,659,066 - 107,734,037 (+)Ensembl
GRCm384107,802,200 - 107,876,840 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4107,801,869 - 107,876,840 (+)EnsemblGRCm38mm10GRCm38
MGSCv374107,474,864 - 107,549,445 (+)NCBIGRCm37mm9NCBIm37
MGSCv364107,300,193 - 107,370,305 (+)NCBImm8
Celera4106,150,293 - 106,225,723 (+)NCBICelera
Cytogenetic Map4C7NCBI
Lrp8
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554645,837,009 - 5,911,672 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554645,837,002 - 5,912,178 (+)NCBIChiLan1.0ChiLan1.0
LRP8
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1154,118,057 - 54,199,448 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl154,114,909 - 54,199,452 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0152,515,534 - 52,600,390 (-)NCBIMhudiblu_PPA_v0panPan3
LRP8
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl555,604,878 - 55,699,736 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1555,604,878 - 55,684,666 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Lrp8
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365227,740,887 - 7,820,488 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LRP8
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6158,905,460 - 158,982,873 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16158,905,464 - 158,984,743 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.26146,568,027 - 146,649,470 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LRP8
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12079,596,138 - 79,681,924 (+)NCBI
ChlSab1.1 Ensembl2079,596,370 - 79,677,278 (+)Ensembl
Lrp8
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046249341,145,982 - 1,220,177 (+)NCBI

Position Markers
RH134765  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.05127,476,347 - 127,476,554NCBIRnor6.0
Rnor_5.05131,324,496 - 131,324,703UniSTSRnor5.0
RGSC_v3.45128,978,108 - 128,978,315UniSTSRGSC3.4
Celera5121,376,617 - 121,376,824UniSTS
RH 3.4 Map5819.8UniSTS
Cytogenetic Map5q35UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51136640934Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)531926122136640934Rat
1641912Alcrsp18Alcohol response QTL 18response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)535788756147487820Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540777918154732375Rat
1331801Rf33Renal function QTL 334.149kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)544404276134502294Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)547745646167946134Rat
1576312Emca8Estrogen-induced mammary cancer QTL 84.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)551418671147487820Rat
70189Mcs5Mammary carcinoma susceptibility QTL 510.51mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)556991667137729065Rat
1358895Bp254Blood pressure QTL 2543.60.0003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)560072951133313852Rat
61426Scl2Serum cholesterol level QTL 27.30.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)561086525149030144Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)561612600168109659Rat
2306971Anxrr21Anxiety related response QTL 219.47fear/anxiety-related behavior trait (VT:1000241)number of entries into a discrete space in an experimental apparatus (CMO:0000960)565696672129038896Rat
1354598Srn6Serum renin concentration QTL 63.8blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)571552569157225114Rat
1298070Scl18Serum cholesterol level QTL 183.7blood LDL cholesterol amount (VT:0000181)calculated plasma low density lipoprotein cholesterol level (CMO:0001245)583424556128424556Rat
1598846Bp293Blood pressure QTL 2933.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)583424556128424556Rat
1598859Cm66Cardiac mass QTL 662heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)583424556128424556Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)584963058173504662Rat
1298086Bp156Blood pressure QTL 156arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)589502294134502294Rat
7411582Foco3Food consumption QTL 37.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)591585539136585539Rat
7411601Foco12Food consumption QTL 1219.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)591585539136585539Rat
7411564Bw135Body weight QTL 1350.001body mass (VT:0001259)body weight gain (CMO:0000420)591585539136585539Rat
6903316Bw113Body weight QTL 11320.0103body mass (VT:0001259)body weight (CMO:0000012)591884213136884213Rat
1358889Bp261Blood pressure QTL 2612.86arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)593037304133313852Rat
1358909Kidm25Kidney mass QTL 251.87kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)593037304133313852Rat
631527Tls1T-lymphoma susceptibility QTL 100.001thymus integrity trait (VT:0010555)post-insult time to onset of T-cell lymphoma (CMO:0001907)593273130138273130Rat
61452Ciaa5CIA Autoantibody QTL 53.5blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)597921932149030144Rat
1331796Thshl2Thyroid stimulating hormone level QTL 22.3blood thyroid-stimulating hormone amount (VT:0005119)serum thyroid stimulating hormone level (CMO:0001248)5100723739153577831Rat
2317753Glom24Glomerulus QTL 243.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)5101265591141912026Rat
1358187Emca1Estrogen-induced mammary cancer QTL 14.4mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)5102945579154732228Rat
1578673Bmd13Bone mineral density QTL 134.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)5107119214152119214Rat
2317056Wbc3White blood cell count QTL 32.510.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)5111278451156278451Rat
1549838Bss4Bone structure and strength QTL 49.2femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)5112279412157279412Rat
7207481Bss106Bone structure and strength QTL 1067.9femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5112279412157279412Rat
7207486Bss109Bone structure and strength QTL 109femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)5112279412157279412Rat
7207488Bss110Bone structure and strength QTL 18.4femur strength trait (VT:0010010)femur stiffness (CMO:0001674)5112279412157279412Rat
7207491Bss112Bone structure and strength QTL 1127femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)5112279412157279412Rat
1298089Scl14Serum cholesterol level QTL 145.80.0004blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)5114140832159140832Rat
1598847Cm62Cardiac mass QTL 623.4heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5114140832159140832Rat
8552960Pigfal15Plasma insulin-like growth factor 1 level QTL 15blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5116767924161767924Rat
8694198Abfw3Abdominal fat weight QTL 316.130.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)5116767924161767924Rat
8694389Bw160Body weight QTL 1606.170.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)5116767924161767924Rat
8694441Bw169Body weight QTL 16917.610.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)5116767924161767924Rat
7794739Bp372Blood pressure QTL 3720.0058arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5122679716130167412Rat
1582230Bw78Body weight QTL 783.20.0016epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)5123852489133313852Rat
1581510Cm54Cardiac mass QTL 543.40.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)5125455818149568944Rat
2293642Bss37Bone structure and strength QTL 374.640.0001femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5125455818157225114Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:92
Count of miRNA genes:41
Interacting mature miRNAs:46
Transcripts:ENSRNOT00000017575, ENSRNOT00000017584
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 8 8 2 6 2 74 4 29
Low 3 34 31 21 13 21 1 1 31 12 11 1
Below cutoff 1 17 17 17 7 10 7

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_003749992 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_003749993 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006238567 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006238570 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006238571 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006238574 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111148 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111149 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111150 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111151 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111152 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111153 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111154 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111155 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111156 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111157 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111158 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111159 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111160 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_342877 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH474008 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000162 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000017575   ⟹   ENSRNOP00000017575
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl5127,404,450 - 127,476,641 (+)Ensembl
RefSeq Acc Id: XM_003749992   ⟹   XP_003750040
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25122,563,475 - 122,635,434 (+)NCBI
Rnor_6.05127,404,417 - 127,476,636 (+)NCBI
Rnor_5.05131,252,497 - 131,324,785 (+)NCBI
Sequence:
RefSeq Acc Id: XM_003749993   ⟹   XP_003750041
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25122,563,474 - 122,635,434 (+)NCBI
Rnor_6.05127,404,417 - 127,476,636 (+)NCBI
Rnor_5.05131,252,497 - 131,324,785 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006225511   ⟹   XP_006225573
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera5121,304,991 - 121,373,312 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006238567   ⟹   XP_006238629
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25122,563,473 - 122,635,434 (+)NCBI
Rnor_6.05127,404,417 - 127,476,636 (+)NCBI
Rnor_5.05131,252,497 - 131,324,785 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006238570   ⟹   XP_006238632
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25122,563,472 - 122,635,434 (+)NCBI
Rnor_6.05127,404,417 - 127,476,636 (+)NCBI
Rnor_5.05131,252,497 - 131,324,785 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006238571   ⟹   XP_006238633
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25122,563,473 - 122,635,434 (+)NCBI
Rnor_6.05127,404,417 - 127,476,636 (+)NCBI
Rnor_5.05131,252,497 - 131,324,785 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006238574   ⟹   XP_006238636
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25122,563,479 - 122,635,434 (+)NCBI
Rnor_6.05127,404,417 - 127,476,636 (+)NCBI
Rnor_5.05131,252,497 - 131,324,785 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008763937   ⟹   XP_008762159
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05127,404,417 - 127,476,636 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008763938   ⟹   XP_008762160
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05127,404,417 - 127,476,636 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008763939   ⟹   XP_008762161
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05127,404,417 - 127,476,636 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008763941   ⟹   XP_008762163
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05127,404,417 - 127,476,636 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008763942   ⟹   XP_008762164
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05127,404,417 - 127,476,636 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008763943   ⟹   XP_008762165
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05127,404,417 - 127,476,636 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008763944   ⟹   XP_008762166
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05127,404,417 - 127,476,636 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008763945   ⟹   XP_008762167
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05127,404,348 - 127,476,636 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008763946   ⟹   XP_008762168
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05127,404,417 - 127,476,636 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008763948   ⟹   XP_008762170
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05127,404,417 - 127,476,636 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039111148   ⟹   XP_038967076
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25122,563,472 - 122,635,434 (+)NCBI
RefSeq Acc Id: XM_039111149   ⟹   XP_038967077
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25122,563,472 - 122,635,434 (+)NCBI
RefSeq Acc Id: XM_039111150   ⟹   XP_038967078
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25122,563,474 - 122,635,434 (+)NCBI
RefSeq Acc Id: XM_039111151   ⟹   XP_038967079
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25122,563,474 - 122,635,434 (+)NCBI
RefSeq Acc Id: XM_039111152   ⟹   XP_038967080
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25122,563,473 - 122,635,434 (+)NCBI
RefSeq Acc Id: XM_039111153   ⟹   XP_038967081
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25122,563,475 - 122,635,434 (+)NCBI
RefSeq Acc Id: XM_039111154   ⟹   XP_038967082
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25122,563,475 - 122,635,434 (+)NCBI
RefSeq Acc Id: XM_039111155   ⟹   XP_038967083
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25122,563,475 - 122,635,434 (+)NCBI
RefSeq Acc Id: XM_039111156   ⟹   XP_038967084
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25122,563,478 - 122,635,434 (+)NCBI
RefSeq Acc Id: XM_039111157   ⟹   XP_038967085
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25122,563,477 - 122,635,434 (+)NCBI
RefSeq Acc Id: XM_039111158   ⟹   XP_038967086
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25122,563,477 - 122,635,434 (+)NCBI
RefSeq Acc Id: XM_039111159   ⟹   XP_038967087
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25122,563,468 - 122,620,430 (+)NCBI
RefSeq Acc Id: XM_039111160   ⟹   XP_038967088
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25122,609,078 - 122,635,434 (+)NCBI
RefSeq Acc Id: XM_342877   ⟹   XP_342878
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25122,563,476 - 122,635,434 (+)NCBI
Rnor_6.05127,404,417 - 127,476,636 (+)NCBI
Rnor_5.05131,252,497 - 131,324,785 (+)NCBI
RGSC_v3.45128,905,612 - 128,975,702 (+)RGD
Sequence:
Reference Sequences
RefSeq Acc Id: XP_342878   ⟸   XM_342877
- Peptide Label: isoform X14
- Sequence:
RefSeq Acc Id: XP_003750040   ⟸   XM_003749992
- Peptide Label: isoform X11
- Sequence:
RefSeq Acc Id: XP_003750041   ⟸   XM_003749993
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_006225573   ⟸   XM_006225511
- Peptide Label: isoform X18
- Sequence:
RefSeq Acc Id: XP_006238632   ⟸   XM_006238570
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006238633   ⟸   XM_006238571
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006238629   ⟸   XM_006238567
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_006238636   ⟸   XM_006238574
- Peptide Label: isoform X20
- Sequence:
RefSeq Acc Id: XP_008762167   ⟸   XM_008763945
- Peptide Label: isoform X12
- Sequence:
RefSeq Acc Id: XP_008762160   ⟸   XM_008763938
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008762163   ⟸   XM_008763941
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_008762164   ⟸   XM_008763942
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_008762159   ⟸   XM_008763937
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008762161   ⟸   XM_008763939
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008762165   ⟸   XM_008763943
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_008762166   ⟸   XM_008763944
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_008762168   ⟸   XM_008763946
- Peptide Label: isoform X13
- Sequence:
RefSeq Acc Id: XP_008762170   ⟸   XM_008763948
- Peptide Label: isoform X14
- Sequence:
RefSeq Acc Id: ENSRNOP00000017575   ⟸   ENSRNOT00000017575
RefSeq Acc Id: XP_038967087   ⟸   XM_039111159
- Peptide Label: isoform X18
RefSeq Acc Id: XP_038967077   ⟸   XM_039111149
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038967076   ⟸   XM_039111148
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038967080   ⟸   XM_039111152
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038967078   ⟸   XM_039111150
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038967079   ⟸   XM_039111151
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038967081   ⟸   XM_039111153
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038967082   ⟸   XM_039111154
- Peptide Label: isoform X12
RefSeq Acc Id: XP_038967083   ⟸   XM_039111155
- Peptide Label: isoform X13
RefSeq Acc Id: XP_038967085   ⟸   XM_039111157
- Peptide Label: isoform X16
RefSeq Acc Id: XP_038967086   ⟸   XM_039111158
- Peptide Label: isoform X17
RefSeq Acc Id: XP_038967084   ⟸   XM_039111156
- Peptide Label: isoform X15
RefSeq Acc Id: XP_038967088   ⟸   XM_039111160
- Peptide Label: isoform X19
Protein Domains
EGF-like

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 (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)
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
ACI/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
BBDP/Wor (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
BN/SsN (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
Buf/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
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
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)
F344/NCrl (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
F344/NRrrc (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
FHH/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)
FHH/EurMcwi (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
FHL/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)
FHL/EurMcwi (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
GH/OmrMcwi (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)
GK/Ox (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
LE/Stm (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
LEW/Crl (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
LEW/NCrlBR (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
LH/MavRrrc (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
LL/MavRrrc (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
LN/MavRrrc (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
M520/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
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 (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
SBH/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: 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)
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
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 (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: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (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
SS/Jr (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
SS/JrHsdMcwi (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)
SS/JrHsdMcwi (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
WAG/Rij (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
WKY/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
WKY/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
WKY/NCrl (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
WKY/NHsd (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
WN/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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305729 AgrOrtholog
Ensembl Genes ENSRNOG00000013064 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000017575 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000017575 UniProtKB/TrEMBL
Gene3D-CATH 2.120.10.30 UniProtKB/TrEMBL
  4.10.400.10 UniProtKB/TrEMBL
InterPro 6-blade_b-propeller_TolB-like UniProtKB/TrEMBL
  EGF-type_Asp/Asn_hydroxyl_site UniProtKB/TrEMBL
  EGF_3 UniProtKB/TrEMBL
  EGF_Ca-bd UniProtKB/TrEMBL
  EGF_Ca-bd_CS UniProtKB/TrEMBL
  Growth_fac_rcpt_N_dom UniProtKB/TrEMBL
  LDL_rcpt_classB_YWTD_rpt UniProtKB/TrEMBL
  LDL_receptor-like_sf UniProtKB/TrEMBL
  LDLR_class-A_CS UniProtKB/TrEMBL
  LDLR_classA_rpt UniProtKB/TrEMBL
NCBI Gene 362558 ENTREZGENE
Pfam EGF_CA UniProtKB/TrEMBL
  Ldl_recept_a UniProtKB/TrEMBL
  Ldl_recept_b UniProtKB/TrEMBL
PhenoGen Lrp8 PhenoGen
PRINTS LDLRECEPTOR UniProtKB/TrEMBL
PROSITE ASX_HYDROXYL UniProtKB/TrEMBL
  EGF_2 UniProtKB/TrEMBL
  EGF_3 UniProtKB/TrEMBL
  EGF_CA UniProtKB/TrEMBL
  LDLRA_1 UniProtKB/TrEMBL
  LDLRA_2 UniProtKB/TrEMBL
  LDLRB UniProtKB/TrEMBL
SMART EGF UniProtKB/TrEMBL
  EGF_CA UniProtKB/TrEMBL
  LDLa UniProtKB/TrEMBL
  SM00135 UniProtKB/TrEMBL
Superfamily-SCOP LDL_rcpt_classA_cys-rich UniProtKB/TrEMBL
  SSF57184 UniProtKB/TrEMBL
UniProt D3ZE75_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-11 Lrp8  LDL receptor related protein 8  Lrp8  low density lipoprotein receptor-related protein 8, apolipoprotein e receptor  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Lrp8  low density lipoprotein receptor-related protein 8, apolipoprotein e receptor   Lrp8_predicted  low density lipoprotein receptor-related protein 8, apolipoprotein e receptor (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Lrp8_predicted  low density lipoprotein receptor-related protein 8, apolipoprotein e receptor (predicted)      Symbol and Name status set to approved 70820 APPROVED