R3hdm2 (R3H domain containing 2) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: R3hdm2 (R3H domain containing 2) Rattus norvegicus
Analyze
Symbol: R3hdm2
Name: R3H domain containing 2
RGD ID: 1310066
Description: Predicted to enable nucleic acid binding activity. Orthologous to human R3HDM2 (R3H domain containing 2); INTERACTS WITH 1-naphthyl isothiocyanate; 2,2',4,4'-Tetrabromodiphenyl ether; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC362894; R3H domain-containing protein 2; RGD1310066; similar to mKIAA1002 protein
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
mRatBN7.2763,212,519 - 63,340,574 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl763,232,346 - 63,340,540 (+)Ensembl
Rnor_6.0770,677,226 - 70,805,255 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl770,697,050 - 70,805,221 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0770,850,447 - 70,978,640 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4767,364,886 - 67,475,880 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1767,442,533 - 67,496,606 (+)NCBI
Celera760,371,508 - 60,479,475 (+)NCBICelera
Cytogenetic Map7q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

Additional References at PubMed
PMID:12477932   PMID:22658674  


Genomics

Comparative Map Data
R3hdm2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2763,212,519 - 63,340,574 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl763,232,346 - 63,340,540 (+)Ensembl
Rnor_6.0770,677,226 - 70,805,255 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl770,697,050 - 70,805,221 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0770,850,447 - 70,978,640 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4767,364,886 - 67,475,880 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1767,442,533 - 67,496,606 (+)NCBI
Celera760,371,508 - 60,479,475 (+)NCBICelera
Cytogenetic Map7q22NCBI
R3HDM2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1257,253,762 - 57,431,005 (-)EnsemblGRCh38hg38GRCh38
GRCh381257,253,764 - 57,431,043 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371257,647,547 - 57,824,826 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361255,933,814 - 55,977,083 (-)NCBINCBI36hg18NCBI36
Celera1257,301,742 - 57,358,703 (-)NCBI
Cytogenetic Map12q13.3NCBI
HuRef1254,686,409 - 54,742,604 (-)NCBIHuRef
CHM1_11257,615,659 - 57,672,355 (-)NCBICHM1_1
R3hdm2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3910127,216,201 - 127,335,253 (+)NCBIGRCm39mm39
GRCm39 Ensembl10127,216,196 - 127,335,253 (+)Ensembl
GRCm3810127,380,332 - 127,499,384 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl10127,380,327 - 127,499,384 (+)EnsemblGRCm38mm10GRCm38
MGSCv3710126,827,367 - 126,936,440 (+)NCBIGRCm37mm9NCBIm37
MGSCv3610126,823,816 - 126,902,329 (+)NCBImm8
Celera10129,782,901 - 129,890,901 (+)NCBICelera
Cytogenetic Map10D3NCBI
R3hdm2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554584,981,968 - 5,127,390 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554584,981,967 - 5,127,409 (-)NCBIChiLan1.0ChiLan1.0
R3HDM2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11231,784,823 - 31,923,910 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1231,868,368 - 31,923,910 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01231,494,789 - 31,672,343 (+)NCBIMhudiblu_PPA_v0panPan3
R3HDM2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1101,377,664 - 1,504,008 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl101,370,350 - 1,504,017 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha101,441,640 - 1,607,075 (-)NCBI
ROS_Cfam_1.0101,388,352 - 1,552,863 (-)NCBI
UMICH_Zoey_3.1101,364,935 - 1,530,961 (-)NCBI
UNSW_CanFamBas_1.0101,606,926 - 1,772,486 (-)NCBI
UU_Cfam_GSD_1.0101,731,870 - 1,897,782 (-)NCBI
R3hdm2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494557,298,889 - 57,422,845 (+)NCBI
SpeTri2.0NW_0049366461,447,704 - 1,571,363 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
R3HDM2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl522,558,175 - 22,719,054 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1522,558,645 - 22,714,250 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2524,392,777 - 24,541,400 (-)NCBISscrofa10.2Sscrofa10.2susScr3
R3HDM2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11153,165,259 - 53,340,627 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1153,164,779 - 53,224,708 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666037192,624,737 - 192,805,448 (+)NCBIVero_WHO_p1.0
R3hdm2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462480210,522,075 - 10,694,396 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D7Rat230  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2763,294,367 - 63,294,498 (+)MAPPERmRatBN7.2
Rnor_6.0770,759,424 - 70,759,568NCBIRnor6.0
Rnor_5.0770,932,760 - 70,932,904UniSTSRnor5.0
RGSC_v3.4767,428,165 - 67,428,310RGDRGSC3.4
RGSC_v3.4767,428,166 - 67,428,310UniSTSRGSC3.4
RGSC_v3.1767,448,895 - 67,449,040RGD
Celera760,433,366 - 60,433,510UniSTS
FHH x ACI Map733.46RGD
FHH x ACI Map733.46UniSTS
Cytogenetic Map7q22UniSTS
RH141287  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2763,340,216 - 63,340,410 (+)MAPPERmRatBN7.2
Rnor_6.0770,804,898 - 70,805,091NCBIRnor6.0
Rnor_5.0770,978,283 - 70,978,476UniSTSRnor5.0
RGSC_v3.4767,475,537 - 67,475,730UniSTSRGSC3.4
Celera760,479,132 - 60,479,325UniSTS
Cytogenetic Map7q22UniSTS
fc22b03.x1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Celera760,467,826 - 60,468,229UniSTS
Cytogenetic Map7q22UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)7946224698011544Rat
1300132Bp182Blood pressure QTL 1823.49arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)71965431784928080Rat
7411569Bw137Body weight QTL 1370.001body mass (VT:0001259)body weight gain (CMO:0000420)72192119566921195Rat
1641885Alcrsp9Alcohol response QTL 9alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)72409960669099606Rat
1549840Bss5Bone structure and strength QTL 59.8femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)72475184169751841Rat
70190Mcs6Mammary carcinoma susceptibility QTL 62.29mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)72673740163902784Rat
10402855Bp379Blood pressure QTL 3790.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)72940968374409683Rat
1300127Srn1Serum renin concentration QTL 13.87blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)72940968384928080Rat
10755453Coatc12Coat color QTL 120coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)73111283276112832Rat
7411605Foco14Food consumption QTL 1424.10.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)73429328279293282Rat
631534Lnnr1Liver neoplastic nodule remodeling QTL 13.850.001liver integrity trait (VT:0010547)liver remodeling tumorous lesion number to liver total tumorous lesion number ratio (CMO:0001705)73429328279293282Rat
631513Scl7Serum cholesterol level QTL 74.1blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)73796056982960569Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)741333674119109060Rat
634326Hc3Hypercalciuria QTL 32.1urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)74278731487787314Rat
10053722Scort27Serum corticosterone level QTL 272.410.0083blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)74322875088228750Rat
1358361Sradr5Stress Responsive Adrenal Weight QTL 55.55adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)743747012108555253Rat
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)743747012135012528Rat
1300149Cm6Cardiac mass QTL 64.09heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)743747099102228765Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)744421311118198041Rat
61428Scl3Serum cholesterol level QTL 33.2blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)74486753389867533Rat
738030Anxrr8Anxiety related response QTL 84.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)74659007091590070Rat
10059605Kidm47Kidney mass QTL 472.910.05kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)74725178365728867Rat
2293696Bmd32Bone mineral density QTL 325.10.0001femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)74765143992651439Rat
2293707Bss32Bone structure and strength QTL 327.640.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)74765143992651439Rat
2300178Bmd54Bone mineral density QTL 545.30.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)74765143992651439Rat
2293644Bmd29Bone mineral density QTL 295.40.0001femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)74765143992651439Rat
2293667Bss42Bone structure and strength QTL 427.250.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)74765143992651439Rat
2293678Bss24Bone structure and strength QTL 246.710.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)74765143992651439Rat
2293685Bmd21Bone mineral density QTL 214.20.0003femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)74765143992651439Rat
1300151Bp181Blood pressure QTL 1813.36arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)753612714103945643Rat
2317035Aia16Adjuvant induced arthritis QTL 162.71joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)759238038104238038Rat
1298528Bp169Blood pressure QTL 1690.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)761074194106074194Rat
1559283Emca4Estrogen-induced mammary cancer QTL 43.7mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)762004452101773158Rat
1576303Ept7Estrogen-induced pituitary tumorigenesis QTL 73.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)762004452101773158Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:86
Count of miRNA genes:65
Interacting mature miRNAs:80
Transcripts:ENSRNOT00000045964
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 38 57 41 19 41 6 9 74 35 39 11 6
Low 5 2 2 2 2
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001130557 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241469 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241472 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241473 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241483 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008765413 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594931 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594932 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594933 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594934 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594935 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594936 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594937 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594938 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594939 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594940 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594941 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594942 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594943 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079496 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079497 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079498 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079499 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079500 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079501 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079502 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079503 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079504 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079505 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079506 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079507 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079508 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079509 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079510 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079511 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005486664 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005486665 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC122965 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC088320 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473950 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227506 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000185 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000045964   ⟹   ENSRNOP00000046983
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl763,232,346 - 63,340,540 (+)Ensembl
Rnor_6.0 Ensembl770,697,050 - 70,805,221 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000090001   ⟹   ENSRNOP00000073015
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl763,232,346 - 63,340,540 (+)Ensembl
Rnor_6.0 Ensembl770,753,101 - 70,804,778 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000097324   ⟹   ENSRNOP00000096190
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl763,232,346 - 63,340,540 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000107753   ⟹   ENSRNOP00000078773
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl763,232,346 - 63,340,540 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000110189   ⟹   ENSRNOP00000078234
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl763,232,346 - 63,340,540 (+)Ensembl
RefSeq Acc Id: NM_001130557   ⟹   NP_001124029
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,232,346 - 63,340,560 (+)NCBI
Rnor_6.0770,697,050 - 70,805,241 (+)NCBI
Rnor_5.0770,850,447 - 70,978,640 (+)NCBI
RGSC_v3.4767,364,886 - 67,475,880 (+)RGD
Celera760,371,508 - 60,479,475 (+)RGD
Sequence:
RefSeq Acc Id: XM_006241472   ⟹   XP_006241534
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,260,255 - 63,340,574 (+)NCBI
Rnor_6.0770,725,305 - 70,805,255 (+)NCBI
Rnor_5.0770,850,447 - 70,978,640 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006241483   ⟹   XP_006241545
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,212,551 - 63,340,574 (+)NCBI
Rnor_6.0770,687,777 - 70,805,255 (+)NCBI
Rnor_5.0770,850,447 - 70,978,640 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008765413   ⟹   XP_008763635
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,212,519 - 63,340,574 (+)NCBI
Rnor_6.0770,677,226 - 70,805,255 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017594931   ⟹   XP_017450420
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,212,550 - 63,340,574 (+)NCBI
Rnor_6.0770,677,304 - 70,805,255 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017594935   ⟹   XP_017450424
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,259,420 - 63,340,574 (+)NCBI
Rnor_6.0770,724,274 - 70,805,255 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017594936   ⟹   XP_017450425
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,288,044 - 63,340,574 (+)NCBI
Rnor_6.0770,687,776 - 70,805,255 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017594940   ⟹   XP_017450429
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,288,044 - 63,340,574 (+)NCBI
Rnor_6.0770,687,776 - 70,805,255 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017594943   ⟹   XP_017450432
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,288,044 - 63,340,574 (+)NCBI
Rnor_6.0770,687,776 - 70,805,255 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039079496   ⟹   XP_038935424
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,212,550 - 63,340,574 (+)NCBI
RefSeq Acc Id: XM_039079497   ⟹   XP_038935425
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,212,550 - 63,340,574 (+)NCBI
RefSeq Acc Id: XM_039079498   ⟹   XP_038935426
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,212,550 - 63,340,574 (+)NCBI
RefSeq Acc Id: XM_039079499   ⟹   XP_038935427
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,212,550 - 63,340,574 (+)NCBI
RefSeq Acc Id: XM_039079500   ⟹   XP_038935428
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,212,550 - 63,340,574 (+)NCBI
RefSeq Acc Id: XM_039079501   ⟹   XP_038935429
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,288,044 - 63,340,574 (+)NCBI
RefSeq Acc Id: XM_039079502   ⟹   XP_038935430
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,288,044 - 63,340,574 (+)NCBI
RefSeq Acc Id: XM_039079503   ⟹   XP_038935431
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,288,044 - 63,340,574 (+)NCBI
RefSeq Acc Id: XM_039079504   ⟹   XP_038935432
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,288,044 - 63,340,574 (+)NCBI
RefSeq Acc Id: XM_039079505   ⟹   XP_038935433
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,288,044 - 63,340,574 (+)NCBI
RefSeq Acc Id: XM_039079506   ⟹   XP_038935434
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,288,044 - 63,340,574 (+)NCBI
RefSeq Acc Id: XM_039079507   ⟹   XP_038935435
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,288,044 - 63,340,574 (+)NCBI
RefSeq Acc Id: XM_039079508   ⟹   XP_038935436
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,288,044 - 63,340,574 (+)NCBI
RefSeq Acc Id: XM_039079509   ⟹   XP_038935437
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,288,044 - 63,340,574 (+)NCBI
RefSeq Acc Id: XM_039079510   ⟹   XP_038935438
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,302,725 - 63,340,574 (+)NCBI
RefSeq Acc Id: XM_039079511   ⟹   XP_038935439
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,288,044 - 63,335,576 (+)NCBI
RefSeq Acc Id: XR_005486664
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,288,044 - 63,340,574 (+)NCBI
RefSeq Acc Id: XR_005486665
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2763,288,044 - 63,340,574 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001124029 (Get FASTA)   NCBI Sequence Viewer  
  XP_006241534 (Get FASTA)   NCBI Sequence Viewer  
  XP_006241545 (Get FASTA)   NCBI Sequence Viewer  
  XP_008763635 (Get FASTA)   NCBI Sequence Viewer  
  XP_017450420 (Get FASTA)   NCBI Sequence Viewer  
  XP_017450424 (Get FASTA)   NCBI Sequence Viewer  
  XP_017450425 (Get FASTA)   NCBI Sequence Viewer  
  XP_017450429 (Get FASTA)   NCBI Sequence Viewer  
  XP_017450432 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935424 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935425 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935426 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935427 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935428 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935429 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935430 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935431 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935432 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935433 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935434 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935435 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935436 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935437 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935438 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935439 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH88320 (Get FASTA)   NCBI Sequence Viewer  
  EDM16466 (Get FASTA)   NCBI Sequence Viewer  
  EDM16467 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001124029   ⟸   NM_001130557
- UniProtKB: G3V9G7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006241545   ⟸   XM_006241483
- Peptide Label: isoform X13
- UniProtKB: G3V9G7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006241534   ⟸   XM_006241472
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008763635   ⟸   XM_008765413
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017450420   ⟸   XM_017594931
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017450425   ⟸   XM_017594936
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K4E8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017450429   ⟸   XM_017594940
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_017450432   ⟸   XM_017594943
- Peptide Label: isoform X12
- Sequence:
RefSeq Acc Id: XP_017450424   ⟸   XM_017594935
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000046983   ⟸   ENSRNOT00000045964
RefSeq Acc Id: ENSRNOP00000073015   ⟸   ENSRNOT00000090001
RefSeq Acc Id: XP_038935426   ⟸   XM_039079498
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038935424   ⟸   XM_039079496
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038935425   ⟸   XM_039079497
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038935427   ⟸   XM_039079499
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038935428   ⟸   XM_039079500
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038935432   ⟸   XM_039079504
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038935433   ⟸   XM_039079505
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038935429   ⟸   XM_039079501
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038935430   ⟸   XM_039079502
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038935435   ⟸   XM_039079507
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038935431   ⟸   XM_039079503
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038935434   ⟸   XM_039079506
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038935436   ⟸   XM_039079508
- Peptide Label: isoform X11
RefSeq Acc Id: XP_038935437   ⟸   XM_039079509
- Peptide Label: isoform X14
RefSeq Acc Id: XP_038935439   ⟸   XM_039079511
- Peptide Label: isoform X16
RefSeq Acc Id: XP_038935438   ⟸   XM_039079510
- Peptide Label: isoform X15
RefSeq Acc Id: ENSRNOP00000078234   ⟸   ENSRNOT00000110189
RefSeq Acc Id: ENSRNOP00000078773   ⟸   ENSRNOT00000107753
RefSeq Acc Id: ENSRNOP00000096190   ⟸   ENSRNOT00000097324
Protein Domains
R3H   SUZ

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)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BUF/N (2020)
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
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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
F344/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/FarMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (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: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
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: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
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: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/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
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (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
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
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: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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/RijCrl (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: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
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
WKY/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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:1310066 AgrOrtholog
Ensembl Genes ENSRNOG00000007801 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000046983 UniProtKB/TrEMBL
  ENSRNOP00000073015 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000045964 UniProtKB/TrEMBL
  ENSRNOT00000090001 UniProtKB/TrEMBL
Gene3D-CATH 3.30.1370.50 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7325813 IMAGE-MGC_LOAD
InterPro R3H_dom_sf UniProtKB/TrEMBL
  R3H_ss-bd UniProtKB/TrEMBL
  SUZ UniProtKB/TrEMBL
KEGG Report rno:362894 UniProtKB/TrEMBL
MGC_CLONE MGC:109558 IMAGE-MGC_LOAD
NCBI Gene 362894 ENTREZGENE
Pfam R3H UniProtKB/TrEMBL
  SUZ UniProtKB/TrEMBL
PhenoGen R3hdm2 PhenoGen
PROSITE R3H UniProtKB/TrEMBL
  SUZ UniProtKB/TrEMBL
SMART R3H UniProtKB/TrEMBL
Superfamily-SCOP SSF82708 UniProtKB/TrEMBL
UniProt A0A0G2K4E8 ENTREZGENE, UniProtKB/TrEMBL
  G3V9G7 ENTREZGENE, UniProtKB/TrEMBL
  Q5M814_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-27 R3hdm2  R3H domain containing 2  RGD1310066  similar to mKIAA1002 protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 RGD1310066  similar to mKIAA1002 protein  RGD1310066_predicted  similar to mKIAA1002 protein (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-20 RGD1310066_predicted  similar to mKIAA1002 protein (predicted)  LOC362894_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC362894_predicted  similar to mKIAA1002 protein (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL