Baz2b (bromodomain adjacent to zinc finger domain, 2B) - Rat Genome Database

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Gene: Baz2b (bromodomain adjacent to zinc finger domain, 2B) Rattus norvegicus
Analyze
Symbol: Baz2b
Name: bromodomain adjacent to zinc finger domain, 2B
RGD ID: 1309801
Description: Predicted to enable DNA binding activity and metal ion binding activity. Predicted to act upstream of or within modulation of age-related behavioral decline. Predicted to be located in nucleus. Orthologous to human BAZ2B (bromodomain adjacent to zinc finger domain 2B); INTERACTS WITH 2,6-dinitrotoluene; 6-propyl-2-thiouracil; amphetamine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: bromodomain adjacent to zinc finger domain protein 2B; LOC317627
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2344,384,282 - 44,681,619 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl344,385,474 - 44,592,908 (-)Ensembl
Rnor_6.0345,968,845 - 46,286,915 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl345,968,825 - 46,153,371 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0351,196,815 - 51,338,843 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.0351,081,857 - 51,162,796 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4341,617,500 - 41,859,791 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1341,512,679 - 41,617,013 (-)NCBI
Celera342,430,535 - 42,670,212 (-)NCBICelera
Cytogenetic Map3q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleus  (IEA)

Molecular Function

References

Additional References at PubMed
PMID:12477932  


Genomics

Comparative Map Data
Baz2b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2344,384,282 - 44,681,619 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl344,385,474 - 44,592,908 (-)Ensembl
Rnor_6.0345,968,845 - 46,286,915 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl345,968,825 - 46,153,371 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0351,196,815 - 51,338,843 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.0351,081,857 - 51,162,796 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4341,617,500 - 41,859,791 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1341,512,679 - 41,617,013 (-)NCBI
Celera342,430,535 - 42,670,212 (-)NCBICelera
Cytogenetic Map3q21NCBI
BAZ2B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2159,318,979 - 159,616,569 (-)EnsemblGRCh38hg38GRCh38
GRCh382159,315,312 - 159,712,442 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372160,175,490 - 160,568,953 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362159,883,736 - 160,181,305 (-)NCBINCBI36hg18NCBI36
Build 342160,000,998 - 160,128,996NCBI
Celera2153,787,429 - 154,084,921 (-)NCBI
Cytogenetic Map2q24.2NCBI
HuRef2152,059,204 - 152,356,919 (-)NCBIHuRef
CHM1_12160,181,389 - 160,479,489 (-)NCBICHM1_1
Baz2b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39259,729,707 - 60,040,243 (-)NCBIGRCm39mm39
GRCm39 Ensembl259,729,707 - 60,040,183 (-)Ensembl
GRCm38259,899,363 - 60,209,913 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl259,899,363 - 60,209,839 (-)EnsemblGRCm38mm10GRCm38
MGSCv37259,737,420 - 59,963,797 (-)NCBIGRCm37mm9NCBIm37
MGSCv36259,700,202 - 59,926,579 (-)NCBImm8
Celera261,594,999 - 61,820,803 (-)NCBICelera
Cytogenetic Map2C1.1NCBI
cM Map234.18NCBI
Baz2b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544914,140,699 - 14,276,933 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544914,008,538 - 14,278,227 (+)NCBIChiLan1.0ChiLan1.0
BAZ2B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12B163,976,008 - 164,377,473 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B163,980,886 - 164,146,146 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02B46,604,986 - 46,929,050 (-)NCBIMhudiblu_PPA_v0panPan3
BAZ2B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1365,083,273 - 5,306,317 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl365,086,530 - 5,479,813 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha365,224,284 - 5,517,073 (-)NCBI
ROS_Cfam_1.0365,207,998 - 5,501,122 (-)NCBI
UMICH_Zoey_3.1365,226,159 - 5,519,092 (-)NCBI
UNSW_CanFamBas_1.0365,268,761 - 5,561,717 (-)NCBI
UU_Cfam_GSD_1.0365,311,475 - 5,604,664 (-)NCBI
Baz2b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303122,254,131 - 122,600,846 (-)NCBI
SpeTri2.0NW_00493646919,106,421 - 19,363,668 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
BAZ2B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1566,254,948 - 66,571,077 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11566,254,888 - 66,411,261 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21573,484,177 - 73,887,256 (-)NCBISscrofa10.2Sscrofa10.2susScr3
BAZ2B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11044,703,711 - 45,029,751 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1044,700,082 - 44,962,340 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666040154,459,304 - 154,866,209 (+)NCBIVero_WHO_p1.0
Baz2b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247325,928,127 - 6,344,173 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D3Rat274  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2344,456,324 - 44,456,527 (+)MAPPERmRatBN7.2
Rnor_6.0346,040,887 - 46,041,089NCBIRnor6.0
Rnor_5.0351,152,707 - 51,152,909UniSTSRnor5.0
RGSC_v3.4341,688,350 - 41,688,554RGDRGSC3.4
RGSC_v3.4341,688,351 - 41,688,553UniSTSRGSC3.4
RGSC_v3.1341,584,722 - 41,584,926RGD
Celera342,501,443 - 42,501,631UniSTS
SHRSP x BN Map332.8199UniSTS
SHRSP x BN Map332.8199RGD
Cytogenetic Map3q21UniSTS
D3Got244  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2344,516,337 - 44,516,463 (+)MAPPERmRatBN7.2
Rnor_6.0346,120,635 - 46,120,760NCBIRnor6.0
Rnor_5.0351,229,775 - 51,229,900UniSTSRnor5.0
RGSC_v3.4341,750,389 - 41,750,514UniSTSRGSC3.4
Celera342,561,055 - 42,561,180UniSTS
Cytogenetic Map3q21UniSTS
RH144325  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2344,385,140 - 44,385,252 (+)MAPPERmRatBN7.2
Rnor_6.0345,969,704 - 45,969,815NCBIRnor6.0
Rnor_5.0351,081,524 - 51,081,635UniSTSRnor5.0
RGSC_v3.4341,617,167 - 41,617,278UniSTSRGSC3.4
Celera342,430,202 - 42,430,313UniSTS
RH 3.4 Map3563.9UniSTS
Cytogenetic Map3q21UniSTS
RH139050  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2344,384,526 - 44,384,669 (+)MAPPERmRatBN7.2
Rnor_6.0345,969,090 - 45,969,232NCBIRnor6.0
Rnor_5.0351,080,910 - 51,081,052UniSTSRnor5.0
RGSC_v3.4341,616,553 - 41,616,695UniSTSRGSC3.4
Celera342,429,588 - 42,429,730UniSTS
RH 3.4 Map3562.63UniSTS
Cytogenetic Map3q21UniSTS
AA800330  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2344,602,524 - 44,602,688 (+)MAPPERmRatBN7.2
Rnor_6.0346,206,817 - 46,206,980NCBIRnor6.0
Rnor_5.0351,315,957 - 51,316,120UniSTSRnor5.0
RGSC_v3.4341,836,571 - 41,836,734UniSTSRGSC3.4
Celera342,647,254 - 42,647,417UniSTS
RH 3.4 Map3593.1UniSTS
Cytogenetic Map3q21UniSTS
MARC_17149-17150:1028234160:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2344,592,595 - 44,592,957 (+)MAPPERmRatBN7.2
Rnor_6.0346,196,888 - 46,197,249NCBIRnor6.0
Rnor_5.0351,306,028 - 51,306,389UniSTSRnor5.0
RGSC_v3.4341,826,642 - 41,827,003UniSTSRGSC3.4
Celera342,637,519 - 42,637,880UniSTS
Cytogenetic Map3q21UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2290452Scl56Serum cholesterol level QTL 562.26blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)3191609953Rat
10401810Kidm53Kidney mass QTL 53kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3822719447233430Rat
70191BpQTLcluster4Blood pressure QTL cluster 43arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)31077870450302886Rat
70191BpQTLcluster4Blood pressure QTL cluster 43arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)31077870450302886Rat
1358905Hrtrt17Heart rate QTL 175.90.000014heart pumping trait (VT:2000009)heart rate (CMO:0000002)31086191289878372Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
2298542Neuinf11Neuroinflammation QTL 113.9nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)31500542276927699Rat
631676Cm8Cardiac mass QTL 87.030.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)31695470861954708Rat
731172Bp151Blood pressure QTL 1510.04arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)31831145447233430Rat
12879849Bw180Body weight QTL 1800.037body mass (VT:0001259)body weight (CMO:0000012)31831145447233430Rat
12879850Cm91Cardiac mass QTL 910.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)31831145447233430Rat
12879851Cm92Cardiac mass QTL 920.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)31831145447233430Rat
12879852Cm93Cardiac mass QTL 930.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)31831145447233430Rat
12879853Am5Aortic mass QTL 50.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)31831145447233430Rat
12879854Kidm63Kidney mass QTL 630.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)31831145447233430Rat
10450804Scl70Serum cholesterol level QTL 704.70.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)32071409065714090Rat
10450794Scl69Serum cholesterol level QTL 696.30.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)32071409065714090Rat
2313049Bss72Bone structure and strength QTL 722.60.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)32749462150302886Rat
2313076Bss74Bone structure and strength QTL 7420.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)32749462150302886Rat
2313079Bss73Bone structure and strength QTL 731.5tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)32749462150302886Rat
2313093Bmd77Bone mineral density QTL 772.20.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)32749462150302886Rat
2313101Bmd76Bone mineral density QTL 763.60.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)32749462150302886Rat
2302055Pia30Pristane induced arthritis QTL 303.50.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)32793691972936919Rat
9590286Uminl1Urine mineral level QTL 13.50.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)32824968773249687Rat
8694196Abfw2Abdominal fat weight QTL 216.580.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)32824968773249687Rat
8694386Bw159Body weight QTL 1594.520.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)32824968773249687Rat
8552950Pigfal12Plasma insulin-like growth factor 1 level QTL 127.3blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)32824968773249687Rat
9590136Scort3Serum corticosterone level QTL 323.370.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)32824968773249687Rat
2303593Gluco46Glucose level QTL 463blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)32846857173468571Rat
1354590Despr11Despair related QTL 110.000031locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)32846857173468571Rat
737818Hcar12Hepatocarcinoma resistance QTL 122.6liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)329463235118376539Rat
61419Cia11Collagen induced arthritis QTL 115.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)33035677398535386Rat
61356Bp37Blood pressure QTL 373blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)33068464275684642Rat
631647Bp122Blood pressure QTL 1226.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)33068464275684642Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
11565451Bw177Body weight QTL 1770.002body mass (VT:0001259)body weight (CMO:0000012)33142640370668733Rat
11565452Kidm57Kidney mass QTL 570.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)33142640370668733Rat
12879866Cm94Cardiac mass QTL 940.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)33142640370668733Rat
12879867Cm95Cardiac mass QTL 950.047heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)33142640370668733Rat
12879868Am6Aortic mass QTL 60.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)33142640370668733Rat
2301400Cm68Cardiac mass QTL 680.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)33142640370668733Rat
1300169Bp177Blood pressure QTL 1772.96arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)33370334761017857Rat
1354589Bw31Body weight QTL 313.3body mass (VT:0001259)body weight (CMO:0000012)33370334778196190Rat
1354604Bw36Body weight QTL 362.9body mass (VT:0001259)body weight (CMO:0000012)333703347104104347Rat
10450852Stl33Serum triglyceride level QTL 333.40.05blood LDL triglyceride amount (VT:0010699)blood lipoprotein triglyceride level (CMO:0002685)33819223350749747Rat
10450816Scl75Serum cholesterol level QTL 754.40.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)33819223350749747Rat
10450813Scl74Serum cholesterol level QTL 745.80.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)33819223350749747Rat
1358362Srcrt2Stress Responsive Cort QTL 22.78blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)338192233133483320Rat
738019Anxrr10Anxiety related response QTL 103.9exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)33851780383517803Rat
4889975Bmd81Bone mineral density QTL 814.3tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)33871036550302886Rat
634317Bw117Body weight QTL 1173.58abdominal fat pad mass (VT:1000711)abdominal fat pad weight to body weight ratio (CMO:0000095)33945463753296578Rat
2302276Bw82Body weight QTL 824.32body mass (VT:0001259)body weight (CMO:0000012)33945463762951183Rat
1331777Bw24Body weight QTL 243.503body mass (VT:0001259)body weight (CMO:0000012)33945463789115240Rat
1331795Rf30Renal function QTL 303.708urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)33945463789115240Rat
1354597Kidm13Kidney mass QTL 132.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)341874578104104347Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)341874578155617519Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)341874578155617519Rat
1300178Hrtrt4Heart rate QTL 43.74heart pumping trait (VT:2000009)heart rate (CMO:0000002)34382736490905114Rat
1581503Cm58Cardiac mass QTL 582.70.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)343827364121056321Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:7
Count of miRNA genes:7
Interacting mature miRNAs:7
Transcripts:ENSRNOT00000056440
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 3 30 22 7 19 7 2 2 74 32 41 11 2
Low 13 35 34 34 6 9 3 6
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001108260 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761847 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761848 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761849 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761850 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761851 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761852 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761853 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761854 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761855 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761856 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761857 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761858 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591862 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591863 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591864 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591865 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105299 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105300 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105301 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105303 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105304 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105305 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105306 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105307 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105309 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105310 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105311 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105312 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105313 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105315 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105316 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105317 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105318 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105319 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105320 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105321 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105322 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105323 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105324 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105326 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105327 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105328 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005501921 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC158852 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473983 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000115 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000081302   ⟹   ENSRNOP00000071727
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl344,385,474 - 44,592,908 (-)Ensembl
Rnor_6.0 Ensembl345,970,037 - 46,051,096 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000085885   ⟹   ENSRNOP00000073275
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl344,385,474 - 44,486,591 (-)Ensembl
Rnor_6.0 Ensembl345,968,825 - 46,153,371 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000102229   ⟹   ENSRNOP00000091778
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl344,385,474 - 44,466,691 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000110670   ⟹   ENSRNOP00000087832
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl344,385,474 - 44,592,908 (-)Ensembl
RefSeq Acc Id: NM_001108260   ⟹   NP_001101730
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,385,474 - 44,625,848 (-)NCBI
Rnor_6.0345,970,037 - 46,230,128 (-)NCBI
Rnor_5.0351,081,857 - 51,162,796 (-)NCBI
Rnor_5.0351,196,815 - 51,338,843 (-)NCBI
RGSC_v3.4341,617,500 - 41,859,791 (-)RGD
Celera342,430,535 - 42,670,212 (-)RGD
Sequence:
RefSeq Acc Id: XM_039105299   ⟹   XP_038961227
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,592,867 (-)NCBI
RefSeq Acc Id: XM_039105300   ⟹   XP_038961228
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,592,850 (-)NCBI
RefSeq Acc Id: XM_039105301   ⟹   XP_038961229
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,562,487 (-)NCBI
RefSeq Acc Id: XM_039105303   ⟹   XP_038961231
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,510,826 (-)NCBI
RefSeq Acc Id: XM_039105304   ⟹   XP_038961232
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,510,774 (-)NCBI
RefSeq Acc Id: XM_039105305   ⟹   XP_038961233
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,681,619 (-)NCBI
RefSeq Acc Id: XM_039105306   ⟹   XP_038961234
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,592,867 (-)NCBI
RefSeq Acc Id: XM_039105307   ⟹   XP_038961235
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,592,867 (-)NCBI
RefSeq Acc Id: XM_039105309   ⟹   XP_038961237
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,592,867 (-)NCBI
RefSeq Acc Id: XM_039105310   ⟹   XP_038961238
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,592,867 (-)NCBI
RefSeq Acc Id: XM_039105311   ⟹   XP_038961239
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,592,867 (-)NCBI
RefSeq Acc Id: XM_039105312   ⟹   XP_038961240
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,592,867 (-)NCBI
RefSeq Acc Id: XM_039105313   ⟹   XP_038961241
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,592,867 (-)NCBI
RefSeq Acc Id: XM_039105315   ⟹   XP_038961243
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,592,867 (-)NCBI
RefSeq Acc Id: XM_039105316   ⟹   XP_038961244
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,592,867 (-)NCBI
RefSeq Acc Id: XM_039105317   ⟹   XP_038961245
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,592,867 (-)NCBI
RefSeq Acc Id: XM_039105318   ⟹   XP_038961246
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,592,867 (-)NCBI
RefSeq Acc Id: XM_039105319   ⟹   XP_038961247
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,592,850 (-)NCBI
RefSeq Acc Id: XM_039105320   ⟹   XP_038961248
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,592,867 (-)NCBI
RefSeq Acc Id: XM_039105321   ⟹   XP_038961249
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,592,867 (-)NCBI
RefSeq Acc Id: XM_039105322   ⟹   XP_038961250
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,592,867 (-)NCBI
RefSeq Acc Id: XM_039105323   ⟹   XP_038961251
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,592,867 (-)NCBI
RefSeq Acc Id: XM_039105324   ⟹   XP_038961252
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,592,867 (-)NCBI
RefSeq Acc Id: XM_039105326   ⟹   XP_038961254
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,592,867 (-)NCBI
RefSeq Acc Id: XM_039105327   ⟹   XP_038961255
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,448,300 (-)NCBI
RefSeq Acc Id: XM_039105328   ⟹   XP_038961256
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,439,054 (-)NCBI
RefSeq Acc Id: XR_005501921
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2344,384,282 - 44,592,867 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001101730 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961227 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961228 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961229 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961231 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961232 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961233 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961234 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961235 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961237 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961238 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961239 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961240 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961241 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961243 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961244 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961245 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961246 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961247 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961248 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961249 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961250 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961251 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961252 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961254 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961255 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961256 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI58853 (Get FASTA)   NCBI Sequence Viewer  
  EDM00389 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001101730   ⟸   NM_001108260
- Sequence:
RefSeq Acc Id: ENSRNOP00000071727   ⟸   ENSRNOT00000081302
RefSeq Acc Id: ENSRNOP00000073275   ⟸   ENSRNOT00000085885
RefSeq Acc Id: XP_038961233   ⟸   XM_039105305
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038961251   ⟸   XM_039105323
- Peptide Label: isoform X17
RefSeq Acc Id: XP_038961250   ⟸   XM_039105322
- Peptide Label: isoform X16
RefSeq Acc Id: XP_038961249   ⟸   XM_039105321
- Peptide Label: isoform X15
RefSeq Acc Id: XP_038961245   ⟸   XM_039105317
- Peptide Label: isoform X12
RefSeq Acc Id: XP_038961237   ⟸   XM_039105309
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038961248   ⟸   XM_039105320
- Peptide Label: isoform X14
RefSeq Acc Id: XP_038961246   ⟸   XM_039105318
- Peptide Label: isoform X13
RefSeq Acc Id: XP_038961243   ⟸   XM_039105315
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038961234   ⟸   XM_039105306
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038961252   ⟸   XM_039105324
- Peptide Label: isoform X18
RefSeq Acc Id: XP_038961240   ⟸   XM_039105312
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038961239   ⟸   XM_039105311
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038961238   ⟸   XM_039105310
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038961244   ⟸   XM_039105316
- Peptide Label: isoform X11
RefSeq Acc Id: XP_038961235   ⟸   XM_039105307
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038961254   ⟸   XM_039105326
- Peptide Label: isoform X19
RefSeq Acc Id: XP_038961241   ⟸   XM_039105313
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038961227   ⟸   XM_039105299
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038961247   ⟸   XM_039105319
- Peptide Label: isoform X13
RefSeq Acc Id: XP_038961228   ⟸   XM_039105300
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038961229   ⟸   XM_039105301
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038961231   ⟸   XM_039105303
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038961232   ⟸   XM_039105304
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038961255   ⟸   XM_039105327
- Peptide Label: isoform X20
RefSeq Acc Id: XP_038961256   ⟸   XM_039105328
- Peptide Label: isoform X21
RefSeq Acc Id: ENSRNOP00000091778   ⟸   ENSRNOT00000102229
RefSeq Acc Id: ENSRNOP00000087832   ⟸   ENSRNOT00000110670
Protein Domains
Bromo   DDT   MBD   PHD-type

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)
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
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 (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)
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
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)
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
F344/NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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)
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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)
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)
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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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEXF10A/StmMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
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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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
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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
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)
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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
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)
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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
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)
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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/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)
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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
SR/JrHsd (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
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
Damaging Variants


Assembly: mRatBN7.2

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 44399095 44399096 C T snv ACI/EurMcwi (2019), ACI/N (2020), DA/OlaHsd (2019), FHH/EurMcwi (2019), M520/NRrrcMcwi (2019), M520/N (2020)
3 44460552 44460553 C G snv PVG/Seac (2019)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 45983658 45983659 C T snv M520/N (2020), M520/NRrrcMcwi (2019), ACI/EurMcwi (MCW), COP/CrCrl (MCW & UW), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), SBN/Ygl (MCW), ACI/N (MCW), M520/N (MCW), ACI/EurMcwi (RGD), BBDP/Wor (RGD), FHH/EurMcwi (RGD), FHL/EurMcwi (RGD), SBN/Ygl (RGD), ACI/EurMcwi (2019), ACI/N (2020), DA/OlaHsd (2019), FHH/EurMcwi (2019)
3 45990222 45990223 T G snv SR/JrHsd (MCW)
3 46037056 46037057 T G snv F344/NCrl (RGD)
3 46045123 46045124 C G snv SBH/Ygl (MCW), SBH/Ygl (RGD), PVG/Seac (2019)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 41631121 41631122 C T snv ACI/EurMcwi (MCW), FHH/EurMcwi (MCW), DA/BklArbNsi (ICAHN), LCR/2Mco (UMich), HCR/2Mco (UMich), LCR/1Mco (UMich), HCR/1Mco (UMich), FHL/EurMcwi (MCW), FHH/EurMcwi (MDC), ACI/N (KNAW), M520/N (KNAW), COP/CrCrl (MCW & UW), ACI/EurMcwi (ICL), BBDP/WorN (ICL), FHH/EurMcwi (ICL), FHL/EurMcwi (ICL), SBN/Ygl (ICL)
3 41639450 41639451 G T snv SR/JrHsd (MCW)
3 41684520 41684521 T G snv SS/JrHsdMcwi (MCW), FHL/EurMcwi (MCW), FHH/EurMcwi (MCW), ACI/EurMcwi (MCW)
3 41692477 41692478 C G snv SBH/Ygl (ICL)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309801 AgrOrtholog
Ensembl Genes ENSRNOG00000056984 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000071727 UniProtKB/TrEMBL
  ENSRNOP00000073275 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000081302 UniProtKB/TrEMBL
  ENSRNOT00000085885 UniProtKB/TrEMBL
Gene3D-CATH 1.20.920.10 UniProtKB/TrEMBL
  3.30.40.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7453728 IMAGE-MGC_LOAD
InterPro BAZ2A/B_Bromo UniProtKB/TrEMBL
  Bromodomain UniProtKB/TrEMBL
  Bromodomain-like_sf UniProtKB/TrEMBL
  Bromodomain_CS UniProtKB/TrEMBL
  DDT_dom_superfamily UniProtKB/TrEMBL
  DNA-bd_integrase-typ UniProtKB/TrEMBL
  Methyl_CpG_DNA-bd UniProtKB/TrEMBL
  WHIM2_dom UniProtKB/TrEMBL
  Znf_FYVE_PHD UniProtKB/TrEMBL
  Znf_PHD UniProtKB/TrEMBL
  Znf_PHD-finger UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
MGC_CLONE MGC:188343 IMAGE-MGC_LOAD
NCBI Gene 317627 ENTREZGENE
Pfam Bromodomain UniProtKB/TrEMBL
  DDT UniProtKB/TrEMBL
  MBD UniProtKB/TrEMBL
  PHD UniProtKB/TrEMBL
  WSD UniProtKB/TrEMBL
PhenoGen Baz2b PhenoGen
PRINTS BROMODOMAIN UniProtKB/TrEMBL
PROSITE BROMODOMAIN_1 UniProtKB/TrEMBL
  BROMODOMAIN_2 UniProtKB/TrEMBL
  DDT UniProtKB/TrEMBL
  MBD UniProtKB/TrEMBL
  ZF_PHD_2 UniProtKB/TrEMBL
SMART BROMO UniProtKB/TrEMBL
  DDT UniProtKB/TrEMBL
  MBD UniProtKB/TrEMBL
  PHD UniProtKB/TrEMBL
Superfamily-SCOP Bromodomain UniProtKB/TrEMBL
  DNA-binding_integrase-type UniProtKB/TrEMBL
  FYVE_PHD_ZnF UniProtKB/TrEMBL
UniProt A0A0G2K175_RAT UniProtKB/TrEMBL
  A0A0G2K535_RAT UniProtKB/TrEMBL
  B0BNJ7_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Baz2b  bromodomain adjacent to zinc finger domain, 2B   Baz2b_predicted  bromodomain adjacent to zinc finger domain, 2B (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Baz2b_predicted  bromodomain adjacent to zinc finger domain, 2B (predicted)      Symbol and Name status set to approved 70820 APPROVED