Mgat5 (alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase) - Rat Genome Database

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Gene: Mgat5 (alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase) Rattus norvegicus
Analyze
Symbol: Mgat5
Name: alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase
RGD ID: 620100
Description: Predicted to enable alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase activity; manganese ion binding activity; and protein phosphatase inhibitor activity. Predicted to be involved in several processes, including negative regulation of protein tyrosine phosphatase activity; positive regulation of receptor signaling pathway via STAT; and protein N-linked glycosylation via asparagine. Predicted to be located in Golgi membrane. Predicted to be active in Golgi apparatus. Used to study proteinuria. Orthologous to human MGAT5 (alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase); PARTICIPATES IN N-linked glycan biosynthetic pathway; INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-Tetrachlorodibenzofuran; acrylamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: Alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase; alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase A; alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase A-like; alpha-mannoside beta-1,6-N-acetylglucosaminyltransferase; glcNAc-T V; GNT-V; LOC100909582; LOC679424; mannoside acetylglucosaminyltransferase 5; mannosyl (alpha-1,6-)-glycoprotein beta-1,6-N-acetyl-glucosaminyltransferase; N-acetylglucosaminyl-transferase V; N-acetylglucosaminyltransferase V; similar to Alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase
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
mRatBN7.21338,675,776 - 38,959,697 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1338,676,119 - 38,959,513 (+)Ensembl
Rnor_6.01343,850,744 - 44,157,860 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1343,850,751 - 44,157,924 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01349,012,580 - 49,250,496 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41339,900,089 - 40,135,002 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11340,113,779 - 40,149,045 (+)NCBI
Celera1339,217,802 - 39,336,884 (+)NCBICelera
Cytogenetic Map13q12-q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

Additional References at PubMed
PMID:10395745   PMID:14561752   PMID:16413118   PMID:18064521   PMID:18343992   PMID:23376485   PMID:23533145   PMID:24619415   PMID:24846175   PMID:30140003  


Genomics

Comparative Map Data
Mgat5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21338,675,776 - 38,959,697 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1338,676,119 - 38,959,513 (+)Ensembl
Rnor_6.01343,850,744 - 44,157,860 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1343,850,751 - 44,157,924 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01349,012,580 - 49,250,496 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41339,900,089 - 40,135,002 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11340,113,779 - 40,149,045 (+)NCBI
Celera1339,217,802 - 39,336,884 (+)NCBICelera
Cytogenetic Map13q12-q13NCBI
MGAT5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2134,119,983 - 134,454,621 (+)EnsemblGRCh38hg38GRCh38
GRCh382134,119,922 - 134,454,621 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh372134,877,506 - 135,212,192 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362134,728,300 - 134,922,938 (+)NCBINCBI36hg18NCBI36
Build 342134,842,899 - 135,040,200NCBI
Celera2128,724,443 - 128,919,142 (+)NCBI
Cytogenetic Map2q21.2-q21.3NCBI
HuRef2127,004,546 - 127,204,992 (+)NCBIHuRef
CHM1_12135,016,473 - 135,216,821 (+)NCBICHM1_1
Mgat5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391127,132,450 - 127,413,760 (+)NCBIGRCm39mm39
GRCm39 Ensembl1127,132,752 - 127,416,073 (+)Ensembl
GRCm381127,204,919 - 127,488,334 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1127,205,015 - 127,488,336 (+)EnsemblGRCm38mm10GRCm38
MGSCv371129,101,563 - 129,379,549 (+)NCBIGRCm37mm9NCBIm37
MGSCv361129,134,308 - 129,311,253 (+)NCBImm8
Celera1129,854,899 - 130,132,451 (+)NCBICelera
Cytogenetic Map1E3NCBI
Mgat5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554401,786,874 - 1,999,281 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554401,705,018 - 2,004,838 (+)NCBIChiLan1.0ChiLan1.0
MGAT5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12B138,284,310 - 138,544,621 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B138,344,539 - 138,538,857 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02B25,394,435 - 25,724,420 (-)NCBIMhudiblu_PPA_v0panPan3
MGAT5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11937,041,215 - 37,334,585 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1937,087,247 - 37,329,723 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1937,236,423 - 37,575,022 (+)NCBI
ROS_Cfam_1.01938,440,089 - 38,672,160 (+)NCBI
UMICH_Zoey_3.11937,082,752 - 37,422,014 (+)NCBI
UNSW_CanFamBas_1.01937,244,160 - 37,582,910 (+)NCBI
UU_Cfam_GSD_1.01938,472,210 - 38,811,086 (+)NCBI
Mgat5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530383,742,596 - 84,069,959 (-)NCBI
SpeTri2.0NW_00493646957,615,755 - 57,875,156 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MGAT5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1517,544,806 - 17,918,944 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11517,544,806 - 17,919,273 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21520,023,165 - 20,366,014 (-)NCBISscrofa10.2Sscrofa10.2susScr3
MGAT5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11018,357,893 - 18,686,009 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1018,487,693 - 18,685,669 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660613,813,320 - 4,147,620 (-)NCBIVero_WHO_p1.0
Mgat5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473233,564,740 - 33,896,573 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D13Rat174  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21338,694,180 - 38,694,475 (-)MAPPERmRatBN7.2
Rnor_6.01343,589,777 - 43,590,069NCBIRnor6.0
Rnor_5.01348,689,916 - 48,690,208UniSTSRnor5.0
Celera1338,015,416 - 38,015,708UniSTS
SHRSP x BN Map137.9399RGD
SHRSP x BN Map137.9399UniSTS
Cytogenetic Map13q11-q12UniSTS
D13Got11  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21338,901,862 - 38,902,100 (+)MAPPERmRatBN7.2
Rnor_6.01344,100,798 - 44,101,035NCBIRnor6.0
Rnor_5.01349,193,740 - 49,193,977UniSTSRnor5.0
RGSC_v3.41340,077,905 - 40,078,143RGDRGSC3.4
RGSC_v3.41340,077,906 - 40,078,143UniSTSRGSC3.4
RGSC_v3.11340,091,949 - 40,092,186RGD
Celera1339,280,091 - 39,280,328UniSTS
RH 3.4 Map1373.7UniSTS
RH 3.4 Map1373.7RGD
RH 2.0 Map13253.2RGD
Cytogenetic Map13q11-q12UniSTS
D13Got18  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21338,946,862 - 38,947,042 (+)MAPPERmRatBN7.2
Rnor_6.01344,145,196 - 44,145,375NCBIRnor6.0
Rnor_5.01349,237,843 - 49,238,022UniSTSRnor5.0
RGSC_v3.41340,122,347 - 40,122,527RGDRGSC3.4
RGSC_v3.41340,122,348 - 40,122,527UniSTSRGSC3.4
RGSC_v3.11340,136,391 - 40,136,570RGD
Celera1339,324,190 - 39,324,369UniSTS
RH 3.4 Map1364.8UniSTS
RH 3.4 Map1364.8RGD
RH 2.0 Map13267.4RGD
Cytogenetic Map13q11-q12UniSTS
D13Got17  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.01348,662,532 - 48,662,807NCBIRnor5.0
Rnor_5.01349,015,787 - 49,015,980NCBIRnor5.0
Rnor_5.01348,662,533 - 48,662,808NCBIRnor5.0
Rnor_5.01349,015,786 - 49,015,979NCBIRnor5.0
RGSC_v3.41339,903,297 - 39,903,489UniSTSRGSC3.4
RGSC_v3.41339,903,296 - 39,903,488RGDRGSC3.4
RGSC_v3.11339,917,339 - 39,917,531RGD
Celera1337,983,770 - 37,983,962UniSTS
RH 3.4 Map1341.1RGD
RH 3.4 Map1341.1UniSTS
Cytogenetic Map13q11-q12UniSTS
D13Hmgc40  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21338,744,968 - 38,745,230 (+)MAPPERmRatBN7.2
mRatBN7.21338,744,968 - 38,745,230 (-)MAPPERmRatBN7.2
Rnor_6.01343,545,977 - 43,546,234NCBIRnor6.0
Rnor_6.01343,938,305 - 43,938,562NCBIRnor6.0
Rnor_5.01349,033,260 - 49,033,517UniSTSRnor5.0
Rnor_5.01348,645,307 - 48,645,564UniSTSRnor5.0
Celera1337,966,255 - 37,966,512UniSTS
Cytogenetic Map13q11-q12UniSTS
RH139379  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21338,675,237 - 38,675,333 (-)MAPPERmRatBN7.2
Rnor_6.01343,606,860 - 43,606,955NCBIRnor6.0
Rnor_5.01348,705,966 - 48,706,061UniSTSRnor5.0
RGSC_v3.41339,832,174 - 39,832,269UniSTSRGSC3.4
Celera1338,030,614 - 38,030,709UniSTS
RH 3.4 Map1373.9UniSTS
Cytogenetic Map13q11-q12UniSTS
BF387978  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21338,882,990 - 38,883,170 (+)MAPPERmRatBN7.2
Rnor_6.01344,081,933 - 44,082,112NCBIRnor6.0
Rnor_5.01349,174,875 - 49,175,054UniSTSRnor5.0
RGSC_v3.41340,059,040 - 40,059,219UniSTSRGSC3.4
Celera1339,261,284 - 39,261,463UniSTS
RH 3.4 Map1371.5UniSTS
Cytogenetic Map13q11-q12UniSTS
BI292164  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21338,729,350 - 38,729,509 (-)MAPPERmRatBN7.2
mRatBN7.21338,729,350 - 38,729,509 (+)MAPPERmRatBN7.2
Rnor_6.01343,922,687 - 43,922,845NCBIRnor6.0
Rnor_6.01343,561,383 - 43,561,541NCBIRnor6.0
Rnor_5.01348,660,713 - 48,660,871UniSTSRnor5.0
Rnor_5.01349,017,642 - 49,017,800UniSTSRnor5.0
RGSC_v3.41339,905,151 - 39,905,309UniSTSRGSC3.4
Celera1337,981,950 - 37,982,108UniSTS
RH 3.4 Map1374.3UniSTS
Cytogenetic Map13q11-q12UniSTS
STS-Z41143  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21338,744,247 - 38,745,331 (-)MAPPERmRatBN7.2
mRatBN7.21338,744,247 - 38,745,331 (+)MAPPERmRatBN7.2
Rnor_6.01343,937,584 - 43,938,663NCBIRnor6.0
Rnor_6.01343,545,876 - 43,546,955NCBIRnor6.0
Rnor_5.01349,032,539 - 49,033,618UniSTSRnor5.0
Rnor_5.01348,645,206 - 48,646,285UniSTSRnor5.0
RGSC_v3.41339,920,050 - 39,921,129UniSTSRGSC3.4
Cytogenetic Map13q11-q12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
738036Lnnr4Liver neoplastic nodule remodeling QTL 43.64liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)13142356786Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
61339Bp24Blood pressure QTL 240.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)13599466844807491Rat
1581554Pur11Proteinuria QTL 11urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581573Uae36Urinary albumin excretion QTL 36urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
7411662Foco29Food consumption QTL 2920.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)13931346554313465Rat
9589141Insul28Insulin level QTL 2810.820.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)13931346554313465Rat
2317040Aia21Adjuvant induced arthritis QTL 212.75joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)13983154154831541Rat
2317046Aia8Adjuvant induced arthritis QTL 83.9700000286102295joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)13983154154831541Rat
1300163Cardf1Cardiac cell morphology QTL 14.18aorta morphology trait (VT:0000272)artery lesion measurement (CMO:0000975)131192944945417941Rat
2302275Gluco37Glucose level QTL 373.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)131192944946193066Rat
631645Bp121Blood pressure QTL 1213.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131491565559915655Rat
9589164Gluco66Glucose level QTL 666.670.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)131515872260158722Rat
1331784Bp222Blood pressure QTL 2222.944arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131769443653050594Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
61391Bp5Blood pressure QTL 55.6arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)132230187567301875Rat
70170Eae14Experimental allergic encephalomyelitis QTL 140.0024nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)132320344868203448Rat
6893338Cm76Cardiac mass QTL 7600.99heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)132369296968692969Rat
1558644Cm45Cardiac mass QTL 453.60.002heart mass (VT:0007028)heart wet weight (CMO:0000069)132369296968692969Rat
2303030Bp327Blood pressure QTL 327arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133039535141184251Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1330395351101056920Rat
2301962Cm72Cardiac mass QTL 724.12heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)133124133158363171Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133124133193395974Rat
2303563Bw89Body weight QTL 896body mass (VT:0001259)body weight (CMO:0000012)133228447177284471Rat
61340Bp25Blood pressure QTL 254.20.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133453521879535218Rat
2292232Pur16Proteinuria QTL 1617.2total urine protein amount (VT:0000032)urine protein level (CMO:0000591)133615572341961389Rat
12879477Bp401Blood pressure QTL 401arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133726209282262092Rat
61349Bp31Blood pressure QTL 315.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
70220Bp55Blood pressure QTL 555.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
4889861Pur29Proteinuria QTL 2913.80.005total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)133741558480753406Rat
1331750Bp220Blood pressure QTL 2202.98arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133741558482415584Rat
1549897Stresp12Stress response QTL 123.35stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)133843340883433408Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:78
Count of miRNA genes:72
Interacting mature miRNAs:77
Transcripts:ENSRNOT00000004995
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 2 6 15 64 35 18 7
Low 1 42 51 41 4 41 7 7 10 23 4 7
Below cutoff 1 1 4 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000004995   ⟹   ENSRNOP00000004995
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1338,676,119 - 38,959,513 (+)Ensembl
Rnor_6.0 Ensembl1343,850,751 - 44,157,924 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000073921   ⟹   ENSRNOP00000067101
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1343,494,350 - 43,566,680 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000100469   ⟹   ENSRNOP00000076422
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1338,676,119 - 38,959,513 (+)Ensembl
RefSeq Acc Id: NM_023095   ⟹   NP_075583
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21338,676,119 - 38,959,513 (+)NCBI
Rnor_6.01343,850,744 - 44,157,849 (+)NCBI
Rnor_5.01349,012,580 - 49,250,496 (+)NCBI
RGSC_v3.41339,900,089 - 40,135,002 (+)RGD
Celera1339,217,802 - 39,336,884 (+)RGD
Sequence:
RefSeq Acc Id: XM_017598934   ⟹   XP_017454423
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21338,675,776 - 38,959,410 (+)NCBI
Rnor_6.01343,850,750 - 44,157,860 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039091087   ⟹   XP_038947015
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21338,818,016 - 38,959,697 (+)NCBI
RefSeq Acc Id: XM_039091088   ⟹   XP_038947016
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21338,675,776 - 38,924,527 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_075583   ⟸   NM_023095
- UniProtKB: Q08834 (UniProtKB/Swiss-Prot),   A9CMA3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017454423   ⟸   XM_017598934
- Peptide Label: isoform X1
- UniProtKB: Q08834 (UniProtKB/Swiss-Prot),   A9CMA3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000004995   ⟸   ENSRNOT00000004995
RefSeq Acc Id: XP_038947016   ⟸   XM_039091088
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038947015   ⟸   XM_039091087
- Peptide Label: isoform X2
RefSeq Acc Id: ENSRNOP00000067101   ⟸   ENSRNOT00000073921
RefSeq Acc Id: ENSRNOP00000076422   ⟸   ENSRNOT00000100469

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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620100 AgrOrtholog
  RGD:6503116 AgrOrtholog
Ensembl Genes ENSRNOG00000003614 Ensembl, UniProtKB/Swiss-Prot
  ENSRNOG00000049403 Ensembl
Ensembl Protein ENSRNOP00000004995 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000004995 UniProtKB/Swiss-Prot
InterPro DUF4525 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GlyclTrfase_18 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:65271 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 65271 ENTREZGENE
Pfam DUF4525 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Glyco_transf_18 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Mgat5 PhenoGen
UniProt A9CMA3 ENTREZGENE, UniProtKB/TrEMBL
  A9CMD1_RAT UniProtKB/TrEMBL
  MGT5A_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Mgat5  alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase  LOC100909582  alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase A-like  Data Merged 737654 PROVISIONAL
2018-07-05 Mgat5  alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase  Mgat5  mannosyl (alpha-1,6-)-glycoprotein beta-1,6-N-acetyl-glucosaminyltransferase  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-04-17 Mgat5  mannosyl (alpha-1,6-)-glycoprotein beta-1,6-N-acetyl-glucosaminyltransferase  LOC679424  similar to Alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase  Data Merged 737654 PROVISIONAL
2012-07-05 LOC100909582  alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase A-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-08-29 Mgat5  mannosyl (alpha-1,6-)-glycoprotein beta-1,6-N-acetyl-glucosaminyltransferase  Mgat5  mannoside acetylglucosaminyltransferase 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC679424  similar to Alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-11-17 Mgat5  mannoside acetylglucosaminyltransferase 5    Alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase  Name updated 1299863 APPROVED
2005-01-20 Mgat5  Alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase    N-acetylglucosaminyltransferase V  Name updated 1299863 APPROVED
2002-08-07 Mgat5  N-acetylglucosaminyltransferase V      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_protein 740 amino acids 729036
gene_protein type II membrane protein 729036