Adgrl3 (adhesion G protein-coupled receptor L3) - Rat Genome Database

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Gene: Adgrl3 (adhesion G protein-coupled receptor L3) Rattus norvegicus
Analyze
Symbol: Adgrl3
Name: adhesion G protein-coupled receptor L3
RGD ID: 620836
Description: Predicted to enable G protein-coupled receptor activity and calcium ion binding activity. Involved in brain development. Predicted to be located in plasma membrane. Predicted to be integral component of membrane. Predicted to be active in axon; cell-cell junction; and glutamatergic synapse. Predicted to be integral component of plasma membrane. Orthologous to human ADGRL3 (adhesion G protein-coupled receptor L3); INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: calcium-independent alpha-latrotoxin receptor 3; calcium-independent alpha-latrotoxin receptor homolog 3; CIRL-3; Cirl3; latrophilin 3; latrophilin-3; Lec3; lectomedin-3; Lphn3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Adgrl3Tn(sb-T2/Bart3)2.151Mcwi   Adgrl3em1Huyc  
Genetic Models: SD-Adgrl3em1Huyc F344-Adgrl3Tn(sb-T2/Bart3)2.151Mcwi
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21426,336,320 - 27,104,060 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1426,368,277 - 27,105,860 (-)Ensembl
Rnor_6.01428,362,176 - 29,226,085 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1428,393,394 - 28,967,980 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01428,183,727 - 29,040,121 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41428,385,112 - 28,854,677 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11428,385,120 - 28,854,677 (-)NCBI
Celera1425,731,451 - 26,185,004 (-)NCBICelera
Cytogenetic Map14p21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

Additional References at PubMed
PMID:9830014   PMID:22405201   PMID:22575564   PMID:24613359   PMID:24739570   PMID:25728924   PMID:25931508   PMID:26235030   PMID:26235031   PMID:32203648  


Genomics

Comparative Map Data
Adgrl3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21426,336,320 - 27,104,060 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1426,368,277 - 27,105,860 (-)Ensembl
Rnor_6.01428,362,176 - 29,226,085 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1428,393,394 - 28,967,980 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01428,183,727 - 29,040,121 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41428,385,112 - 28,854,677 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11428,385,120 - 28,854,677 (-)NCBI
Celera1425,731,451 - 26,185,004 (-)NCBICelera
Cytogenetic Map14p21NCBI
ADGRL3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl461,200,326 - 62,078,335 (+)EnsemblGRCh38hg38GRCh38
GRCh38461,200,326 - 62,078,335 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37462,066,044 - 62,944,053 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36462,045,434 - 62,620,763 (+)NCBINCBI36hg18NCBI36
Build 34462,191,604 - 62,766,933NCBI
Celera459,821,669 - 60,396,265 (+)NCBI
Cytogenetic Map4q13.1NCBI
HuRef458,271,407 - 58,846,164 (+)NCBIHuRef
CHM1_1462,398,708 - 62,974,117 (+)NCBICHM1_1
Adgrl3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39581,167,600 - 81,980,556 (+)NCBIGRCm39mm39
GRCm39 Ensembl581,167,985 - 81,972,980 (+)Ensembl
GRCm38581,019,085 - 81,827,825 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl581,020,138 - 81,825,133 (+)EnsemblGRCm38mm10GRCm38
MGSCv37581,450,618 - 82,224,755 (+)NCBIGRCm37mm9NCBIm37
MGSCv36582,096,154 - 82,870,291 (+)NCBImm8
Celera578,280,126 - 79,039,754 (+)NCBICelera
Cytogenetic Map5D- E1NCBI
Adgrl3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554479,943,598 - 10,709,008 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554479,912,679 - 10,708,743 (-)NCBIChiLan1.0ChiLan1.0
ADGRL3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1468,315,996 - 69,183,881 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl468,323,404 - 69,003,093 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0461,876,694 - 62,742,354 (-)NCBIMhudiblu_PPA_v0panPan3
ADGRL3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11352,742,043 - 53,568,184 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1352,909,684 - 53,538,625 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1352,651,031 - 53,476,080 (+)NCBI
ROS_Cfam_1.01353,378,322 - 54,210,364 (+)NCBI
UMICH_Zoey_3.11353,058,300 - 53,887,839 (+)NCBI
UNSW_CanFamBas_1.01352,577,693 - 53,373,845 (+)NCBI
UU_Cfam_GSD_1.01353,501,337 - 54,367,460 (+)NCBI
Adgrl3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528522,750,332 - 23,528,212 (-)NCBI
SpeTri2.0NW_0049365825,313,215 - 6,091,351 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ADGRL3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl860,630,117 - 60,792,899 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1859,988,280 - 60,800,177 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
ADGRL3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.176,726,400 - 7,261,059 (-)NCBIChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660667,000,551 - 7,860,788 (-)NCBIVero_WHO_p1.0
Adgrl3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247617,219,269 - 8,101,988 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
D14Rat41  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21426,585,205 - 26,585,343 (+)MAPPERmRatBN7.2
Rnor_6.01428,610,223 - 28,610,358NCBIRnor6.0
Rnor_5.01428,430,315 - 28,430,450UniSTSRnor5.0
RGSC_v3.41428,613,332 - 28,613,468RGDRGSC3.4
RGSC_v3.41428,613,333 - 28,613,468UniSTSRGSC3.4
RGSC_v3.11428,613,272 - 28,613,579RGD
Celera1425,946,331 - 25,946,466UniSTS
SHRSP x BN Map1415.94UniSTS
SHRSP x BN Map1415.94RGD
FHH x ACI Map1426.22RGD
Cytogenetic Map14p21UniSTS
RH131601  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21426,632,977 - 26,633,164 (+)MAPPERmRatBN7.2
Rnor_6.01428,660,581 - 28,660,767NCBIRnor6.0
Rnor_5.01428,478,328 - 28,478,514UniSTSRnor5.0
RGSC_v3.41428,661,008 - 28,661,194UniSTSRGSC3.4
Celera1425,994,511 - 25,994,697UniSTS
RH 3.4 Map14337.9UniSTS
Cytogenetic Map14p21UniSTS
RH144064  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21426,374,479 - 26,374,617 (+)MAPPERmRatBN7.2
Rnor_6.01428,398,820 - 28,398,957NCBIRnor6.0
Rnor_5.01428,220,371 - 28,220,508UniSTSRnor5.0
RGSC_v3.41428,391,019 - 28,391,156UniSTSRGSC3.4
RGSC_v3.41428,316,659 - 28,316,796UniSTSRGSC3.4
Celera1425,737,358 - 25,737,495UniSTS
RH 3.4 Map14338.4UniSTS
Cytogenetic Map14p21UniSTS
BF397398  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21426,582,800 - 26,582,934 (+)MAPPERmRatBN7.2
Rnor_6.01428,607,818 - 28,607,951NCBIRnor6.0
Rnor_5.01428,427,910 - 28,428,043UniSTSRnor5.0
RGSC_v3.41428,610,928 - 28,611,061UniSTSRGSC3.4
Celera1425,943,926 - 25,944,059UniSTS
RH 3.4 Map14336.8UniSTS
Cytogenetic Map14p21UniSTS
BE107836  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21426,574,328 - 26,574,479 (+)MAPPERmRatBN7.2
Rnor_6.01428,599,348 - 28,599,498NCBIRnor6.0
Rnor_5.01428,419,440 - 28,419,590UniSTSRnor5.0
RGSC_v3.41428,602,458 - 28,602,608UniSTSRGSC3.4
RH 3.4 Map14340.3UniSTS
Cytogenetic Map14p21UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2300159Bmd61Bone mineral density QTL 615.30.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
2300183Bmd60Bone mineral density QTL 605.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
619619Rf4Renal disease susceptibility QTL 44.10.002total urine protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)14132754612Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141131407Rat
1331740Bw26Body weight QTL 263.028body mass (VT:0001259)body weight (CMO:0000012)14381307430767156Rat
1581500Renag1Renal agenesis QTL 1kidney development trait (VT:0000527)percentage of study population developing unilateral renal agenesis during a period of time (CMO:0000940)14817066868298175Rat
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin14826709053267090Rat
2302045Pia39Pristane induced arthritis QTL 394.90.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G2a level (CMO:0002116)14826709053267090Rat
731183Pia20Pristane induced arthritis QTL 203.55joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)14908897839057237Rat
2302277Gluco38Glucose level QTL 385.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062228035204Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062295876975Rat
631212Bw5Body weight QTL55.43retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)141103081230320092Rat
1300140Srn3Serum renin concentration QTL 33.19blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)141487516830883947Rat
71117Niddm17Non-insulin dependent diabetes mellitus QTL 172.35blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)141759376142336881Rat
631262Tcas4Tongue tumor susceptibility QTL 47.29tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)141762256142337007Rat
2313397Coatc1Coat color QTL1coat/hair pigmentation trait (VT:0010463)coat/hair color measurement (CMO:0001808)141854133263541332Rat
61420Pia6Pristane induced arthritis QTL 64.9joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)141863134542337007Rat
10755459Coatc15Coat color QTL 150.01681coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)141983694464836944Rat


Genetic Models
This gene Adgrl3 is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:317
Count of miRNA genes:180
Interacting mature miRNAs:210
Transcripts:ENSRNOT00000044659, ENSRNOT00000048175, ENSRNOT00000059942
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


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 6 66 6 21 11
Low 3 39 45 29 13 29 8 8 8 29 20 8
Below cutoff 4 12 12 12 3

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_130822 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769968 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769969 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769970 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769971 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769972 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769973 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769974 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769975 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769976 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769977 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769978 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769979 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769980 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769981 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769982 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769983 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769984 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769985 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769986 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599058 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599059 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599060 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599061 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091574 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091575 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091576 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091577 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091578 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091579 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091580 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091581 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091582 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091583 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091584 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091585 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091586 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091587 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091588 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091589 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF063103 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF081154 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF081155 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF081156 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF081157 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF081158 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF081159 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473981 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000252 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000044659   ⟹   ENSRNOP00000045365
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1426,369,223 - 27,105,860 (-)Ensembl
Rnor_6.0 Ensembl1428,393,563 - 28,856,214 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000048175   ⟹   ENSRNOP00000039467
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1426,369,054 - 27,105,860 (-)Ensembl
Rnor_6.0 Ensembl1428,394,103 - 28,967,980 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000059942   ⟹   ENSRNOP00000056687
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1426,369,054 - 27,105,860 (-)Ensembl
Rnor_6.0 Ensembl1428,393,394 - 28,536,260 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000100277   ⟹   ENSRNOP00000096360
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1426,368,584 - 27,105,860 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000103416   ⟹   ENSRNOP00000084026
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1426,369,054 - 27,105,860 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000106702   ⟹   ENSRNOP00000092249
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1426,368,277 - 27,105,860 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000112088   ⟹   ENSRNOP00000083229
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1426,369,054 - 27,105,860 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000112583   ⟹   ENSRNOP00000076473
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1426,369,054 - 27,105,860 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000112920   ⟹   ENSRNOP00000079850
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1426,368,277 - 27,105,860 (-)Ensembl
RefSeq Acc Id: NM_130822   ⟹   NP_570835
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,368,573 - 26,824,444 (-)NCBI
Rnor_6.01428,392,913 - 28,856,315 (-)NCBI
Rnor_5.01428,183,727 - 29,040,121 (-)NCBI
RGSC_v3.41428,385,112 - 28,854,677 (-)RGD
Celera1425,731,451 - 26,185,004 (-)RGD
Sequence:
RefSeq Acc Id: XM_008769968   ⟹   XP_008768190
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,627 - 27,104,059 (-)NCBI
Rnor_6.01428,386,354 - 29,226,085 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008769969   ⟹   XP_008768191
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,627 - 27,104,060 (-)NCBI
Rnor_6.01428,386,354 - 29,226,085 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008769970   ⟹   XP_008768192
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,627 - 27,104,059 (-)NCBI
Rnor_6.01428,386,354 - 29,226,085 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008769971   ⟹   XP_008768193
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,627 - 27,104,058 (-)NCBI
Rnor_6.01428,386,354 - 29,226,085 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008769972   ⟹   XP_008768194
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,627 - 27,104,060 (-)NCBI
Rnor_6.01428,386,354 - 29,226,085 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008769973   ⟹   XP_008768195
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,627 - 27,104,058 (-)NCBI
Rnor_6.01428,386,354 - 29,226,085 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008769974   ⟹   XP_008768196
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,627 - 27,104,058 (-)NCBI
Rnor_6.01428,386,354 - 29,226,085 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008769975   ⟹   XP_008768197
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,627 - 27,104,057 (-)NCBI
Rnor_6.01428,386,354 - 29,226,085 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008769976   ⟹   XP_008768198
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,627 - 27,104,056 (-)NCBI
Rnor_6.01428,386,354 - 29,226,085 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008769977   ⟹   XP_008768199
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,627 - 27,104,059 (-)NCBI
Rnor_6.01428,386,354 - 29,226,085 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008769978   ⟹   XP_008768200
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,627 - 27,104,056 (-)NCBI
Rnor_6.01428,386,354 - 29,226,085 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008769979   ⟹   XP_008768201
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,627 - 27,104,056 (-)NCBI
Rnor_6.01428,386,354 - 29,226,084 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008769980   ⟹   XP_008768202
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,369,866 - 27,104,059 (-)NCBI
Rnor_6.01428,394,203 - 29,226,085 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008769981   ⟹   XP_008768203
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,629 - 27,104,058 (-)NCBI
Rnor_6.01428,386,354 - 29,226,084 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008769982   ⟹   XP_008768204
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,369,866 - 27,104,057 (-)NCBI
Rnor_6.01428,394,203 - 29,226,084 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008769983   ⟹   XP_008768205
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,629 - 27,104,056 (-)NCBI
Rnor_6.01428,386,354 - 29,226,084 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008769984   ⟹   XP_008768206
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,336,320 - 27,104,057 (-)NCBI
Rnor_6.01428,362,176 - 29,226,084 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008769985   ⟹   XP_008768207
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,629 - 27,104,058 (-)NCBI
Rnor_6.01428,386,354 - 29,226,084 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008769986   ⟹   XP_008768208
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,629 - 27,104,056 (-)NCBI
Rnor_6.01428,386,354 - 29,226,084 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599058   ⟹   XP_017454547
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,627 - 27,104,059 (-)NCBI
Rnor_6.01428,386,354 - 29,226,085 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599059   ⟹   XP_017454548
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,627 - 27,104,059 (-)NCBI
Rnor_6.01428,386,354 - 29,226,085 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039091574   ⟹   XP_038947502
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,627 - 27,103,201 (-)NCBI
RefSeq Acc Id: XM_039091575   ⟹   XP_038947503
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,627 - 27,104,059 (-)NCBI
RefSeq Acc Id: XM_039091576   ⟹   XP_038947504
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,627 - 27,104,060 (-)NCBI
RefSeq Acc Id: XM_039091577   ⟹   XP_038947505
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,369,223 - 27,104,060 (-)NCBI
RefSeq Acc Id: XM_039091578   ⟹   XP_038947506
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,627 - 27,104,058 (-)NCBI
RefSeq Acc Id: XM_039091579   ⟹   XP_038947507
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,627 - 27,104,056 (-)NCBI
RefSeq Acc Id: XM_039091580   ⟹   XP_038947508
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,627 - 27,104,057 (-)NCBI
RefSeq Acc Id: XM_039091581   ⟹   XP_038947509
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,627 - 27,104,058 (-)NCBI
RefSeq Acc Id: XM_039091582   ⟹   XP_038947510
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,627 - 27,104,056 (-)NCBI
RefSeq Acc Id: XM_039091583   ⟹   XP_038947511
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,367,627 - 27,104,058 (-)NCBI
RefSeq Acc Id: XM_039091584   ⟹   XP_038947512
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,369,866 - 27,104,059 (-)NCBI
RefSeq Acc Id: XM_039091585   ⟹   XP_038947513
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,369,866 - 27,104,057 (-)NCBI
RefSeq Acc Id: XM_039091586   ⟹   XP_038947514
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,369,866 - 27,104,058 (-)NCBI
RefSeq Acc Id: XM_039091587   ⟹   XP_038947515
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,369,866 - 27,104,056 (-)NCBI
RefSeq Acc Id: XM_039091588   ⟹   XP_038947516
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,369,866 - 27,104,057 (-)NCBI
RefSeq Acc Id: XM_039091589   ⟹   XP_038947517
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21426,383,761 - 27,104,057 (-)NCBI
Protein Sequences
Protein RefSeqs NP_570835 (Get FASTA)   NCBI Sequence Viewer  
  XP_008768190 (Get FASTA)   NCBI Sequence Viewer  
  XP_008768191 (Get FASTA)   NCBI Sequence Viewer  
  XP_008768192 (Get FASTA)   NCBI Sequence Viewer  
  XP_008768193 (Get FASTA)   NCBI Sequence Viewer  
  XP_008768194 (Get FASTA)   NCBI Sequence Viewer  
  XP_008768195 (Get FASTA)   NCBI Sequence Viewer  
  XP_008768196 (Get FASTA)   NCBI Sequence Viewer  
  XP_008768197 (Get FASTA)   NCBI Sequence Viewer  
  XP_008768198 (Get FASTA)   NCBI Sequence Viewer  
  XP_008768199 (Get FASTA)   NCBI Sequence Viewer  
  XP_008768200 (Get FASTA)   NCBI Sequence Viewer  
  XP_008768201 (Get FASTA)   NCBI Sequence Viewer  
  XP_008768202 (Get FASTA)   NCBI Sequence Viewer  
  XP_008768203 (Get FASTA)   NCBI Sequence Viewer  
  XP_008768204 (Get FASTA)   NCBI Sequence Viewer  
  XP_008768205 (Get FASTA)   NCBI Sequence Viewer  
  XP_008768206 (Get FASTA)   NCBI Sequence Viewer  
  XP_008768207 (Get FASTA)   NCBI Sequence Viewer  
  XP_008768208 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454547 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454548 (Get FASTA)   NCBI Sequence Viewer  
  XP_038947502 (Get FASTA)   NCBI Sequence Viewer  
  XP_038947503 (Get FASTA)   NCBI Sequence Viewer  
  XP_038947504 (Get FASTA)   NCBI Sequence Viewer  
  XP_038947505 (Get FASTA)   NCBI Sequence Viewer  
  XP_038947506 (Get FASTA)   NCBI Sequence Viewer  
  XP_038947507 (Get FASTA)   NCBI Sequence Viewer  
  XP_038947508 (Get FASTA)   NCBI Sequence Viewer  
  XP_038947509 (Get FASTA)   NCBI Sequence Viewer  
  XP_038947510 (Get FASTA)   NCBI Sequence Viewer  
  XP_038947511 (Get FASTA)   NCBI Sequence Viewer  
  XP_038947512 (Get FASTA)   NCBI Sequence Viewer  
  XP_038947513 (Get FASTA)   NCBI Sequence Viewer  
  XP_038947514 (Get FASTA)   NCBI Sequence Viewer  
  XP_038947515 (Get FASTA)   NCBI Sequence Viewer  
  XP_038947516 (Get FASTA)   NCBI Sequence Viewer  
  XP_038947517 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAC62660 (Get FASTA)   NCBI Sequence Viewer  
  AAC62661 (Get FASTA)   NCBI Sequence Viewer  
  AAC62662 (Get FASTA)   NCBI Sequence Viewer  
  AAC62663 (Get FASTA)   NCBI Sequence Viewer  
  AAC62664 (Get FASTA)   NCBI Sequence Viewer  
  AAC62665 (Get FASTA)   NCBI Sequence Viewer  
  AAC77816 (Get FASTA)   NCBI Sequence Viewer  
  EDL89856 (Get FASTA)   NCBI Sequence Viewer  
  EDL89857 (Get FASTA)   NCBI Sequence Viewer  
  EDL89858 (Get FASTA)   NCBI Sequence Viewer  
  EDL89859 (Get FASTA)   NCBI Sequence Viewer  
  EDL89860 (Get FASTA)   NCBI Sequence Viewer  
  EDL89861 (Get FASTA)   NCBI Sequence Viewer  
  EDL89862 (Get FASTA)   NCBI Sequence Viewer  
  EDL89863 (Get FASTA)   NCBI Sequence Viewer  
  EDL89864 (Get FASTA)   NCBI Sequence Viewer  
  Q9Z173 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_570835   ⟸   NM_130822
- Peptide Label: precursor
- Sequence:
RefSeq Acc Id: XP_008768206   ⟸   XM_008769984
- Peptide Label: isoform X29
- Sequence:
RefSeq Acc Id: XP_008768201   ⟸   XM_008769979
- Peptide Label: isoform X21
- Sequence:
RefSeq Acc Id: XP_008768199   ⟸   XM_008769977
- Peptide Label: isoform X17
- Sequence:
RefSeq Acc Id: XP_008768191   ⟸   XM_008769969
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008768200   ⟸   XM_008769978
- Peptide Label: isoform X18
- Sequence:
RefSeq Acc Id: XP_008768194   ⟸   XM_008769972
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_008768198   ⟸   XM_008769976
- Peptide Label: isoform X13
- Sequence:
RefSeq Acc Id: XP_008768195   ⟸   XM_008769973
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_008768193   ⟸   XM_008769971
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_008768203   ⟸   XM_008769981
- Peptide Label: isoform X24
- Sequence:
RefSeq Acc Id: XP_008768197   ⟸   XM_008769975
- Peptide Label: isoform X11
- Sequence:
RefSeq Acc Id: XP_008768196   ⟸   XM_008769974
- Peptide Label: isoform X10
- Sequence:
RefSeq Acc Id: XP_008768192   ⟸   XM_008769970
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_008768190   ⟸   XM_008769968
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008768208   ⟸   XM_008769986
- Peptide Label: isoform X34
- Sequence:
RefSeq Acc Id: XP_008768207   ⟸   XM_008769985
- Peptide Label: isoform X33
- Sequence:
RefSeq Acc Id: XP_008768205   ⟸   XM_008769983
- Peptide Label: isoform X28
- Sequence:
RefSeq Acc Id: XP_008768202   ⟸   XM_008769980
- Peptide Label: isoform X22
- Sequence:
RefSeq Acc Id: XP_008768204   ⟸   XM_008769982
- Peptide Label: isoform X25
- Sequence:
RefSeq Acc Id: XP_017454548   ⟸   XM_017599059
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017454547   ⟸   XM_017599058
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000056687   ⟸   ENSRNOT00000059942
RefSeq Acc Id: ENSRNOP00000039467   ⟸   ENSRNOT00000048175
RefSeq Acc Id: ENSRNOP00000045365   ⟸   ENSRNOT00000044659
RefSeq Acc Id: XP_038947504   ⟸   XM_039091576
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038947503   ⟸   XM_039091575
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038947511   ⟸   XM_039091583
- Peptide Label: isoform X20
RefSeq Acc Id: XP_038947509   ⟸   XM_039091581
- Peptide Label: isoform X16
RefSeq Acc Id: XP_038947506   ⟸   XM_039091578
- Peptide Label: isoform X12
RefSeq Acc Id: XP_038947508   ⟸   XM_039091580
- Peptide Label: isoform X15
RefSeq Acc Id: XP_038947510   ⟸   XM_039091582
- Peptide Label: isoform X19
RefSeq Acc Id: XP_038947507   ⟸   XM_039091579
- Peptide Label: isoform X14
RefSeq Acc Id: XP_038947502   ⟸   XM_039091574
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038947505   ⟸   XM_039091577
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038947512   ⟸   XM_039091584
- Peptide Label: isoform X23
RefSeq Acc Id: XP_038947514   ⟸   XM_039091586
- Peptide Label: isoform X27
RefSeq Acc Id: XP_038947513   ⟸   XM_039091585
- Peptide Label: isoform X26
RefSeq Acc Id: XP_038947516   ⟸   XM_039091588
- Peptide Label: isoform X31
RefSeq Acc Id: XP_038947515   ⟸   XM_039091587
- Peptide Label: isoform X30
RefSeq Acc Id: XP_038947517   ⟸   XM_039091589
- Peptide Label: isoform X32
RefSeq Acc Id: ENSRNOP00000079850   ⟸   ENSRNOT00000112920
RefSeq Acc Id: ENSRNOP00000084026   ⟸   ENSRNOT00000103416
RefSeq Acc Id: ENSRNOP00000096360   ⟸   ENSRNOT00000100277
RefSeq Acc Id: ENSRNOP00000076473   ⟸   ENSRNOT00000112583
RefSeq Acc Id: ENSRNOP00000083229   ⟸   ENSRNOT00000112088
RefSeq Acc Id: ENSRNOP00000092249   ⟸   ENSRNOT00000106702
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)
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 (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: 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)
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: 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)
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)
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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)
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
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)
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 (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)
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)
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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)
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/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
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
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)
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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
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)
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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: 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)
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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
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)
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)
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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)
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)
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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)
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 (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)
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 (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)
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 (2020)