Sox6 (SRY-box transcription factor 6) - Rat Genome Database

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Gene: Sox6 (SRY-box transcription factor 6) Rattus norvegicus
Analyze
Symbol: Sox6
Name: SRY-box transcription factor 6
RGD ID: 1309000
Description: Enables cis-regulatory region sequence-specific DNA binding activity. Involved in astrocyte differentiation. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in high grade glioma. Orthologous to human SOX6 (SRY-box transcription factor 6); INTERACTS WITH (+)-schisandrin B; 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC102549121; SRY (sex determining region Y)-box 6; SRY box 6; SRY-box containing gene 6; transcription factor SOX-6; uncharacterized LOC102549121
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
mRatBN7.21169,723,306 - 170,334,846 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1169,729,194 - 170,277,386 (-)Ensembl
Rnor_6.01185,631,702 - 186,186,192 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1185,673,177 - 186,182,829 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01192,644,288 - 193,155,831 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41173,556,966 - 174,069,437 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11173,696,212 - 174,208,683 (-)NCBI
Celera1167,560,079 - 168,058,656 (-)NCBICelera
Cytogenetic Map1q35NCBI
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
nucleoplasm  (ISO)
nucleus  (IBA,IEA,ISO,ISS)

References

Additional References at PubMed
PMID:9755172   PMID:12081133   PMID:12446692   PMID:12477932   PMID:14530442   PMID:15565366   PMID:15634692   PMID:16462943   PMID:17084361   PMID:18403418   PMID:19690046   PMID:20081117  
PMID:20711497   PMID:20940257   PMID:21073445   PMID:21401405   PMID:21884692   PMID:22082260   PMID:24647564   PMID:24662752   PMID:24854956   PMID:26345464   PMID:26525805   PMID:26659076  
PMID:31076992   PMID:32114773  


Genomics

Comparative Map Data
Sox6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21169,723,306 - 170,334,846 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1169,729,194 - 170,277,386 (-)Ensembl
Rnor_6.01185,631,702 - 186,186,192 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1185,673,177 - 186,182,829 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01192,644,288 - 193,155,831 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41173,556,966 - 174,069,437 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11173,696,212 - 174,208,683 (-)NCBI
Celera1167,560,079 - 168,058,656 (-)NCBICelera
Cytogenetic Map1q35NCBI
SOX6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1115,966,449 - 16,739,591 (-)EnsemblGRCh38hg38GRCh38
GRCh381115,966,449 - 16,738,477 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371115,987,995 - 16,760,024 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361115,948,371 - 16,454,494 (-)NCBINCBI36hg18NCBI36
Build 341115,949,899 - 16,454,494NCBI
Celera1116,115,232 - 16,625,247 (-)NCBI
Cytogenetic Map11p15.2NCBI
HuRef1115,673,238 - 16,183,365 (-)NCBIHuRef
CHM1_11115,987,568 - 16,497,588 (-)NCBICHM1_1
Sox6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm397115,070,107 - 115,639,186 (-)NCBIGRCm39mm39
GRCm39 Ensembl7115,070,107 - 115,638,031 (-)Ensembl
GRCm387115,470,872 - 116,040,776 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7115,470,872 - 116,038,796 (-)EnsemblGRCm38mm10GRCm38
MGSCv377122,614,858 - 123,182,258 (-)NCBIGRCm37mm9NCBIm37
MGSCv367115,262,493 - 115,822,196 (-)NCBImm8
Celera7115,422,369 - 115,985,959 (-)NCBICelera
Cytogenetic Map7F1NCBI
cM Map761.29NCBI
Sox6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541430,971,920 - 31,335,263 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541430,965,626 - 31,532,473 (-)NCBIChiLan1.0ChiLan1.0
SOX6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11115,747,495 - 16,175,439 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1115,747,495 - 16,175,246 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01116,053,730 - 16,488,566 (-)NCBIMhudiblu_PPA_v0panPan3
SOX6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12138,737,072 - 39,320,257 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2138,737,247 - 39,216,549 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2138,232,821 - 38,820,718 (-)NCBI
ROS_Cfam_1.02139,826,638 - 40,154,574 (-)NCBI
UMICH_Zoey_3.12138,844,094 - 39,431,782 (-)NCBI
UNSW_CanFamBas_1.02139,056,763 - 39,644,974 (-)NCBI
UU_Cfam_GSD_1.02139,389,267 - 39,977,587 (-)NCBI
Sox6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494746,297,725 - 46,878,443 (+)NCBI
SpeTri2.0NW_0049365282,331,706 - 2,912,423 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SOX6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl242,448,216 - 43,068,325 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1242,447,391 - 43,068,824 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2246,096,295 - 46,213,212 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SOX6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1148,206,243 - 48,955,819 (+)NCBI
Vero_WHO_p1.0NW_023666038145,770,561 - 146,435,141 (+)NCBI
Sox6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247667,683,492 - 8,301,823 (-)NCBI

Position Markers
D1Rat281  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21169,923,731 - 169,923,880 (-)MAPPERmRatBN7.2
Rnor_6.01185,988,399 - 185,988,543NCBIRnor6.0
Rnor_5.01192,957,333 - 192,957,477UniSTSRnor5.0
RGSC_v3.41173,757,797 - 173,757,942RGDRGSC3.4
RGSC_v3.41173,757,798 - 173,757,942UniSTSRGSC3.4
RGSC_v3.11173,897,043 - 173,897,188RGD
Celera1167,754,585 - 167,754,729UniSTS
SHRSP x BN Map185.7999RGD
SHRSP x BN Map185.7999UniSTS
Cytogenetic Map1q34UniSTS
UniSTS:144491  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21169,729,239 - 169,729,409 (-)MAPPERmRatBN7.2
Rnor_6.01186,182,614 - 186,182,783NCBIRnor6.0
Rnor_5.01193,151,399 - 193,151,568UniSTSRnor5.0
RGSC_v3.41173,557,013 - 173,557,182UniSTSRGSC3.4
Celera1167,560,126 - 167,560,295UniSTS
Cytogenetic Map1q34UniSTS
STS-H69535  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21169,910,327 - 169,910,482 (-)MAPPERmRatBN7.2
Rnor_6.01186,001,797 - 186,001,951NCBIRnor6.0
Rnor_5.01192,970,731 - 192,970,885UniSTSRnor5.0
RGSC_v3.41173,744,390 - 173,744,544UniSTSRGSC3.4
Celera1167,741,178 - 167,741,332UniSTS
Cytogenetic Map1q34UniSTS
U32614  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21169,729,183 - 169,729,343 (-)MAPPERmRatBN7.2
Rnor_6.01186,182,680 - 186,182,839NCBIRnor6.0
Rnor_5.01193,151,465 - 193,151,624UniSTSRnor5.0
RGSC_v3.41173,556,957 - 173,557,116UniSTSRGSC3.4
Celera1167,560,070 - 167,560,229UniSTS
Cytogenetic Map1q34UniSTS
Sox6  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21169,729,304 - 169,729,541 (-)MAPPERmRatBN7.2
Rnor_6.01186,182,482 - 186,182,718NCBIRnor6.0
Rnor_5.01193,151,267 - 193,151,503UniSTSRnor5.0
RGSC_v3.41173,557,078 - 173,557,314UniSTSRGSC3.4
Celera1167,560,191 - 167,560,427UniSTS
Cytogenetic Map1q34UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
737828Hcas3Hepatocarcinoma susceptibility QTL 34.9liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)1144267353222987745Rat
631654Bp107Blood pressure QTL 107arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1125611501170611501Rat
737974Bp161Blood pressure QTL 1610.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1164747558181133855Rat
4889428Stresp24Stress response QTL 240.05heart pumping trait (VT:2000009)absolute change in electrocardiographic low frequency R-R spectral component to high frequency R-R spectral component ratio (CMO:0002162)1155866514200866514Rat
6893347Bw98Body weight QTL 980.20.53body mass (VT:0001259)body weight (CMO:0000012)1133680936178680936Rat
6893361Bw104Body weight QTL 1040.590.27body mass (VT:0001259)body weight (CMO:0000012)1133680936178680936Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)194642722214537671Rat
738006Anxrr14Anxiety related response QTL 1440.00035locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1130636910175636910Rat
8655649Arrd1Age-related retinal degeneration QTL 14.89retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1100357752183970443Rat
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1115540693238914717Rat
9685799Bp375Blood pressure QTL 375arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1125611501170611501Rat
9685802Bp376Blood pressure QTL 376arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1126540680171540680Rat
738028Anxrr12Anxiety related response QTL 124.90.00001locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1130636910175636910Rat
631519Pia11Pristane induced arthritis QTL 115.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1136830018181830018Rat
631544Bp84Blood pressure QTL 845.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1123350408181759564Rat
634315Niddm45Non-insulin dependent diabetes mellitus QTL 457.16blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1144267916172949660Rat
7771612Cm80Cardiac mass QTL 808.4heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)1149448574221264292Rat
7421630Bp362Blood pressure QTL 3620.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118608292241799120Rat
1300158Bp173Blood pressure QTL 1733.48arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)1115540693185145286Rat
1331751Bp199Blood pressure QTL 1993.60022arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)194494440181830018Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132737458199368955Rat
1331793Bp200Blood pressure QTL 2003.71601arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)194494440172949803Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1156677124256448636Rat
1354591Cm36Cardiac mass QTL 364.1heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1102813953201278233Rat
1354606Bp246Blood pressure QTL 2463.6arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)1102813953218753816Rat
1354615Cm32Cardiac mass QTL 325.2heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1102813953201278233Rat
1354618Kidm15Kidney mass QTL 155kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)1156677124201278233Rat
1354620Kidm19Kidney mass QTL 194kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1151162512201278233Rat
1354634Kidm12Kidney mass QTL 123.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)1151162512201278233Rat
1354636Lmblg1Limb length QTL 16.4tibia length (VT:0004357)tibia length (CMO:0000450)1151162512201278233Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1151162512256448636Rat
1354653Despr9Despair related QTL 90.00019locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1167909849212909849Rat
1558645Bw55Body weight QTL 553.20.004body mass (VT:0001259)body weight (CMO:0000012)1133680936178680936Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1153136852260522016Rat
1358189Cstrr1Cold stress response QTL 10.0001catecholamine amount (VT:0010543)urine norepinephrine level (CMO:0001629)1123350408182418476Rat
1358886Bp260Blood pressure QTL 2603.67arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1151162766225824951Rat
1641895Bp298Blood pressure QTL 298arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1123350408182418476Rat
1598853Memor3Memory QTL 34.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)1143506580212458660Rat
1578759Uae30Urinary albumin excretion QTL 303.30.003urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1150700247252085048Rat
1578770Stresp23Stress response QTL 23kidney sympathetic nerve activity (VT:0004050)stimulated renal sympathetic nerve activity to basal renal sympathetic nerve activity ratio (CMO:0001786)1123350408182418476Rat
1578778Pur4Proteinuria QTL 43.30.003total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1150700247252085048Rat
61343Bp28Blood pressure QTL 28arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1151646613196646613Rat
61347Bp197Blood pressure QTL 1974.2arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)1158633083203633083Rat
61348Bp30Blood pressure QTL 302.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1144017057197814409Rat
70209Niddm23Non-insulin dependent diabetes mellitus QTL 232.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)194494440198324465Rat
2292220Bp306Blood pressure QTL 3063.470.00087arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1164310393243914901Rat
2292222Bp307Blood pressure QTL 3073.060.0014arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1164310393213533942Rat
71118Thym1Thymus enlargement QTL 110.170.001thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1136829932181829932Rat
631199Cm23Cardiac mass QTL 234.60.0004heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1115585465172949803Rat
631205Bp196Blood pressure QTL 19640.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118944897199050459Rat
724521Uae1Urinary albumin excretion QTL 13.80.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)190508614173018436Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1150700142252085212Rat
724550Thym3Thymus enlargement QTL 37.820.001thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1136829932181829932Rat
724562Rends1Renal damage susceptibility QTL 10.05kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)1169537671214537671Rat
2312420Pur17Proteinuria QTL 177.10.0001urine protein amount (VT:0005160)urine total protein excretion rate (CMO:0000756)1156677124218753816Rat
2312558Glom17Glomerulus QTL 173.90.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)1166532971191278129Rat
2303622Vencon6Ventilatory control QTL 60.001respiration trait (VT:0001943)respiration rate (CMO:0000289)1154561505199561505Rat
1582204Livw1Liver weight QTL 13.60.0003liver mass (VT:0003402)liver weight as percentage of body weight (CMO:0000141)1155422851172949803Rat
61341Bp26Blood pressure QTL 26arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1169537671214537671Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1144267353251128347Rat
619614Bp78Blood pressure QTL 780.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1169112897197261052Rat
619614Bp78Blood pressure QTL 780.001arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1169112897197261052Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149393289199050459Rat
1358902Bw47Body weight QTL 471.67body mass (VT:0001259)body weight (CMO:0000012)190508614180359386Rat
631548Bp88Blood pressure QTL 8850.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1156677124176484451Rat
61379Bp44Blood pressure QTL 4419.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1144267916174133260Rat
1354602Bw35Body weight QTL 3512.2body mass (VT:0001259)body weight (CMO:0000012)1151162512201278233Rat
70160Bw18Body weight QTL 185.7body mass (VT:0001259)body weight (CMO:0000012)1144267353196383635Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)181591954219808434Rat
631549Bp89Blood pressure QTL 895.7arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1123350581201284552Rat
619613Bp77Blood pressure QTL 770.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1164747424209747424Rat
619613Bp77Blood pressure QTL 770.01arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1164747424209747424Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1331749Hrtrt11Heart rate QTL 112.973heart pumping trait (VT:2000009)heart rate (CMO:0000002)194494440198211706Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:153
Count of miRNA genes:118
Interacting mature miRNAs:122
Transcripts:ENSRNOT00000048020
Prediction methods:Microtar, Miranda, Rnahybrid
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 19 15 10 15 8 9 52 8 8 8
Low 3 43 38 26 9 26 2 22 27 33 11
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001024751 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006230087 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006230089 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006230091 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006230092 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006230093 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006230094 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017588968 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017588969 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106301 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106304 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106313 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106323 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106327 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106328 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106334 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106338 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106343 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106354 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106360 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106363 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106367 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106370 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106374 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106377 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106381 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106392 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC128610 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC097403 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473956 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000043 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000048020   ⟹   ENSRNOP00000044088
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1169,729,194 - 170,231,022 (-)Ensembl
Rnor_6.0 Ensembl1185,673,177 - 186,182,829 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000079072   ⟹   ENSRNOP00000068898
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1169,729,194 - 170,050,118 (-)Ensembl
Rnor_6.0 Ensembl1185,863,043 - 186,182,828 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000094350   ⟹   ENSRNOP00000079879
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1169,729,194 - 170,277,386 (-)Ensembl
RefSeq Acc Id: NM_001024751   ⟹   NP_001019922
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,729,193 - 170,231,022 (-)NCBI
Rnor_6.01185,673,177 - 186,182,830 (+)NCBI
Rnor_5.01192,644,288 - 193,155,831 (+)NCBI
RGSC_v3.41173,556,966 - 174,069,437 (-)RGD
Celera1167,560,079 - 168,058,656 (-)RGD
Sequence:
RefSeq Acc Id: XM_006230087   ⟹   XP_006230149
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,729,392 - 170,051,487 (-)NCBI
Rnor_6.01185,851,620 - 186,186,192 (+)NCBI
Rnor_5.01192,644,288 - 193,155,831 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006230089   ⟹   XP_006230151
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,723,306 - 170,083,009 (-)NCBI
Rnor_6.01185,817,879 - 186,186,192 (+)NCBI
Rnor_5.01192,644,288 - 193,155,831 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006230091   ⟹   XP_006230153
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,723,306 - 170,069,436 (-)NCBI
Rnor_6.01185,836,253 - 186,186,192 (+)NCBI
Rnor_5.01192,644,288 - 193,155,831 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006230092   ⟹   XP_006230154
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,729,392 - 170,051,481 (-)NCBI
Rnor_6.01185,851,621 - 186,186,192 (+)NCBI
Rnor_5.01192,644,288 - 193,155,831 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006230093   ⟹   XP_006230155
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,729,392 - 170,051,480 (-)NCBI
Rnor_6.01185,851,621 - 186,186,192 (+)NCBI
Rnor_5.01192,644,288 - 193,155,831 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006230094   ⟹   XP_006230156
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,723,306 - 170,051,481 (-)NCBI
Rnor_6.01185,851,621 - 186,186,192 (+)NCBI
Rnor_5.01192,644,288 - 193,155,831 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017588968   ⟹   XP_017444457
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,723,306 - 170,049,275 (-)NCBI
Rnor_6.01185,863,326 - 186,186,192 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039106301   ⟹   XP_038962229
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,723,306 - 170,051,485 (-)NCBI
RefSeq Acc Id: XM_039106304   ⟹   XP_038962232
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,723,306 - 170,051,488 (-)NCBI
RefSeq Acc Id: XM_039106313   ⟹   XP_038962241
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,729,392 - 170,051,490 (-)NCBI
RefSeq Acc Id: XM_039106323   ⟹   XP_038962251
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,723,306 - 170,277,329 (-)NCBI
RefSeq Acc Id: XM_039106327   ⟹   XP_038962255
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,723,306 - 170,334,846 (-)NCBI
RefSeq Acc Id: XM_039106328   ⟹   XP_038962256
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,723,306 - 170,243,324 (-)NCBI
RefSeq Acc Id: XM_039106334   ⟹   XP_038962262
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,723,306 - 170,334,846 (-)NCBI
RefSeq Acc Id: XM_039106338   ⟹   XP_038962266
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,723,306 - 170,272,382 (-)NCBI
RefSeq Acc Id: XM_039106343   ⟹   XP_038962271
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,723,306 - 170,271,086 (-)NCBI
RefSeq Acc Id: XM_039106354   ⟹   XP_038962282
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,723,306 - 170,273,116 (-)NCBI
RefSeq Acc Id: XM_039106360   ⟹   XP_038962288
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,723,306 - 170,190,592 (-)NCBI
RefSeq Acc Id: XM_039106363   ⟹   XP_038962291
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,723,306 - 170,272,382 (-)NCBI
RefSeq Acc Id: XM_039106367   ⟹   XP_038962295
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,723,306 - 170,272,382 (-)NCBI
RefSeq Acc Id: XM_039106370   ⟹   XP_038962298
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,723,306 - 170,182,670 (-)NCBI
RefSeq Acc Id: XM_039106374   ⟹   XP_038962302
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,723,306 - 170,233,502 (-)NCBI
RefSeq Acc Id: XM_039106377   ⟹   XP_038962305
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,723,306 - 170,100,531 (-)NCBI
RefSeq Acc Id: XM_039106381   ⟹   XP_038962309
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,723,306 - 170,042,426 (-)NCBI
RefSeq Acc Id: XM_039106392   ⟹   XP_038962320
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21169,729,197 - 170,181,237 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001019922 (Get FASTA)   NCBI Sequence Viewer  
  XP_006230149 (Get FASTA)   NCBI Sequence Viewer  
  XP_006230151 (Get FASTA)   NCBI Sequence Viewer  
  XP_006230153 (Get FASTA)   NCBI Sequence Viewer  
  XP_006230154 (Get FASTA)   NCBI Sequence Viewer  
  XP_006230155 (Get FASTA)   NCBI Sequence Viewer  
  XP_006230156 (Get FASTA)   NCBI Sequence Viewer  
  XP_017444457 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962229 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962232 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962241 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962251 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962255 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962256 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962262 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962266 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962271 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962282 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962288 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962291 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962295 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962298 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962302 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962305 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962309 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962320 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein A0A0G2JTZ2 (Get FASTA)   NCBI Sequence Viewer  
  AAH97403 (Get FASTA)   NCBI Sequence Viewer  
  EDM17750 (Get FASTA)   NCBI Sequence Viewer  
  EDM17751 (Get FASTA)   NCBI Sequence Viewer  
  EDM17752 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001019922   ⟸   NM_001024751
- UniProtKB: Q4V8G3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006230151   ⟸   XM_006230089
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006230153   ⟸   XM_006230091
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006230149   ⟸   XM_006230087
- Peptide Label: isoform X2
- UniProtKB: A0A0G2JTZ2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006230156   ⟸   XM_006230094
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_006230154   ⟸   XM_006230092
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_006230155   ⟸   XM_006230093
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_017444457   ⟸   XM_017588968
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: ENSRNOP00000068898   ⟸   ENSRNOT00000079072
RefSeq Acc Id: ENSRNOP00000044088   ⟸   ENSRNOT00000048020
RefSeq Acc Id: XP_038962262   ⟸   XM_039106334
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038962255   ⟸   XM_039106327
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038962251   ⟸   XM_039106323
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038962282   ⟸   XM_039106354
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038962266   ⟸   XM_039106338
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038962295   ⟸   XM_039106367
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038962291   ⟸   XM_039106363
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038962271   ⟸   XM_039106343
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038962256   ⟸   XM_039106328
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038962302   ⟸   XM_039106374
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038962288   ⟸   XM_039106360
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038962298   ⟸   XM_039106370
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038962305   ⟸   XM_039106377
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038962232   ⟸   XM_039106304
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038962229   ⟸   XM_039106301
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038962309   ⟸   XM_039106381
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038962320   ⟸   XM_039106392
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038962241   ⟸   XM_039106313
- Peptide Label: isoform X4
RefSeq Acc Id: ENSRNOP00000079879   ⟸   ENSRNOT00000094350
Protein Domains
HMG box

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)
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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)
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)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BUF/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/N (MCW)
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)
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)
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)
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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)
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)
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
WN/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309000 AgrOrtholog
Ensembl Genes ENSRNOG00000020514 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000044088 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000068898 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000048020 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000079072 UniProtKB/TrEMBL
Gene3D-CATH 1.10.30.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7453944 IMAGE-MGC_LOAD
InterPro HMG_box_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HMG_box_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SOX-5/6 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:293165 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:114448 IMAGE-MGC_LOAD
NCBI Gene 293165 ENTREZGENE
PANTHER PTHR45789:SF1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam HMG_box UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Sox6 PhenoGen
PROSITE HMG_BOX_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART HMG UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47095 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JTZ2 ENTREZGENE
  A0A6I8PLH1_RAT UniProtKB/TrEMBL
  A0A6R0V8A0_RAT UniProtKB/TrEMBL
  Q4V8G3 ENTREZGENE
  SOX6_RAT UniProtKB/Swiss-Prot
UniProt Secondary F1MAJ5 UniProtKB/Swiss-Prot
  Q4V8G3 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Sox6  SRY-box transcription factor 6  LOC102549121  uncharacterized LOC102549121  Data Merged 737654 PROVISIONAL
2019-08-05 Sox6  SRY-box transcription factor 6  Sox6  SRY box 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-11-12 Sox6  SRY box 6  Sox6  SRY (sex determining region Y)-box 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-12-17 LOC102549121  uncharacterized LOC102549121      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-09-18 Sox6  SRY (sex determining region Y)-box 6  Sox6  SRY-box containing gene 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Sox6  SRY-box containing gene 6  Sox6_predicted  SRY-box containing gene 6 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Sox6_predicted  SRY-box containing gene 6 (predicted)      Symbol and Name status set to approved 70820 APPROVED