Robo2 (roundabout guidance receptor 2) - Rat Genome Database

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Gene: Robo2 (roundabout guidance receptor 2) Rattus norvegicus
Analyze
Symbol: Robo2
Name: roundabout guidance receptor 2
RGD ID: 620167
Description: Enables axon guidance receptor activity. Involved in axon guidance; brain development; and spinal cord development. Predicted to be located in axolemma and cell surface. Human ortholog(s) of this gene implicated in vesicoureteral reflux. Orthologous to human ROBO2 (roundabout guidance receptor 2); INTERACTS WITH 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: roundabout (axon guidance receptor, Drosophila) homolog 2; roundabout 2; roundabout 2 (Drosophila); roundabout 2 precursor; roundabout homolog 2; roundabout homolog 2 (Drosophila); roundabout, axon guidance receptor, homolog 2; roundabout, axon guidance receptor, homolog 2 (Drosophila)
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
mRatBN7.21112,528,949 - 14,096,726 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1112,528,951 - 13,041,536 (-)Ensembl
Rnor_6.01111,062,866 - 12,618,793 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1111,062,790 - 11,585,765 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01114,733,231 - 16,280,429 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41112,662,391 - 13,174,865 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11112,703,047 - 13,174,870 (-)NCBI
Celera1112,554,755 - 13,062,027 (-)NCBICelera
Cytogenetic Map11p11NCBI
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
References

Additional References at PubMed
PMID:10197527   PMID:11404413   PMID:11748139   PMID:11779479   PMID:12504588   PMID:15084255   PMID:15091338   PMID:15130495   PMID:16625395   PMID:17357069   PMID:17360927   PMID:18566128  
PMID:18986510   PMID:19056867   PMID:19782674   PMID:20172023   PMID:25691540   PMID:26026792   PMID:27686659   PMID:33208157  


Genomics

Comparative Map Data
Robo2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21112,528,949 - 14,096,726 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1112,528,951 - 13,041,536 (-)Ensembl
Rnor_6.01111,062,866 - 12,618,793 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1111,062,790 - 11,585,765 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01114,733,231 - 16,280,429 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41112,662,391 - 13,174,865 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11112,703,047 - 13,174,870 (-)NCBI
Celera1112,554,755 - 13,062,027 (-)NCBICelera
Cytogenetic Map11p11NCBI
ROBO2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl375,906,695 - 77,649,964 (+)EnsemblGRCh38hg38GRCh38
GRCh38375,906,675 - 77,649,964 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37375,955,826 - 77,699,115 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36377,171,984 - 77,779,351 (+)NCBINCBI36hg18NCBI36
Celera376,699,396 - 78,441,286 (+)NCBI
Cytogenetic Map3p12.3NCBI
HuRef375,973,031 - 77,717,615 (+)NCBIHuRef
CHM1_1375,910,357 - 77,652,288 (+)NCBICHM1_1
Robo2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391673,688,864 - 75,244,331 (-)NCBIGRCm39mm39
GRCm39 Ensembl1673,688,727 - 74,208,713 (-)Ensembl
GRCm381673,891,976 - 75,447,443 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1673,891,839 - 74,411,825 (-)EnsemblGRCm38mm10GRCm38
MGSCv371673,892,551 - 74,411,157 (-)NCBIGRCm37mm9NCBIm37
MGSCv361673,802,886 - 74,293,900 (-)NCBImm8
Celera1674,137,198 - 74,644,299 (-)NCBICelera
Cytogenetic Map16C3.1NCBI
Robo2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540714,305,498 - 14,842,790 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540714,301,689 - 15,549,561 (-)NCBIChiLan1.0ChiLan1.0
ROBO2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1378,302,882 - 79,636,211 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl379,030,223 - 79,632,309 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0376,013,780 - 77,764,156 (+)NCBIMhudiblu_PPA_v0panPan3
ROBO2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1319,415,390 - 11,047,710 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl319,419,026 - 11,022,392 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha319,420,630 - 11,058,263 (-)NCBI
ROS_Cfam_1.0319,436,477 - 11,072,284 (-)NCBI
UMICH_Zoey_3.1319,391,612 - 11,045,561 (-)NCBI
UNSW_CanFamBas_1.0319,447,797 - 11,083,079 (-)NCBI
UU_Cfam_GSD_1.0319,840,219 - 11,478,685 (-)NCBI
Robo2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497110,624,527 - 11,827,565 (-)NCBI
SpeTri2.0NW_0049365055,544,011 - 6,747,417 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ROBO2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13177,365,717 - 179,013,542 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113177,365,712 - 179,040,027 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
ROBO2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12299,334,033 - 101,101,924 (-)NCBIChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604165,887,247 - 67,640,347 (+)NCBIVero_WHO_p1.0
Robo2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624745800,963 - 2,121,445 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
D11Rat101  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21112,831,046 - 12,831,293 (+)MAPPERmRatBN7.2
Rnor_6.01111,367,306 - 11,367,552NCBIRnor6.0
Rnor_5.01115,035,502 - 15,035,748UniSTSRnor5.0
RGSC_v3.41112,965,570 - 12,965,817RGDRGSC3.4
RGSC_v3.41112,965,571 - 12,965,817UniSTSRGSC3.4
RGSC_v3.11112,965,570 - 12,965,817RGD
Celera1112,855,183 - 12,855,429UniSTS
RH 2.0 Map11663.6RGD
SHRSP x BN Map112.5899RGD
Cytogenetic Map11p11UniSTS
D11Got9  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21112,769,135 - 12,769,271 (+)MAPPERmRatBN7.2
Rnor_6.01111,303,467 - 11,303,610NCBIRnor6.0
Rnor_5.01114,974,034 - 14,974,177UniSTSRnor5.0
Celera1112,793,718 - 12,793,839UniSTS
RH 2.0 Map11693.1RGD
Cytogenetic Map11p11UniSTS
RH71142  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21112,532,720 - 12,532,904 (+)MAPPERmRatBN7.2
Rnor_6.01111,066,636 - 11,066,819NCBIRnor6.0
Rnor_5.01114,737,001 - 14,737,184UniSTSRnor5.0
RGSC_v3.41112,666,161 - 12,666,344UniSTSRGSC3.4
Celera1112,558,525 - 12,558,708UniSTS
Cytogenetic Map11p11UniSTS
AU048024  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21112,965,586 - 12,965,787 (+)MAPPERmRatBN7.2
Rnor_6.01111,501,152 - 11,501,350NCBIRnor6.0
Rnor_5.01115,168,991 - 15,169,189UniSTSRnor5.0
RGSC_v3.41113,100,423 - 13,100,621UniSTSRGSC3.4
Celera1112,989,389 - 12,989,587UniSTS
Cytogenetic Map11p11UniSTS
RH139555  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21112,555,547 - 12,555,758 (+)MAPPERmRatBN7.2
Rnor_6.01111,089,466 - 11,089,676NCBIRnor6.0
Rnor_5.01114,759,831 - 14,760,041UniSTSRnor5.0
RGSC_v3.41112,688,990 - 12,689,200UniSTSRGSC3.4
Celera1112,581,394 - 12,581,604UniSTS
Cytogenetic Map11p11UniSTS
RH142712  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21113,029,895 - 13,029,995 (+)MAPPERmRatBN7.2
Rnor_6.01111,576,417 - 11,576,516NCBIRnor6.0
Rnor_5.01115,244,296 - 15,244,395UniSTSRnor5.0
RGSC_v3.41113,165,753 - 13,165,852UniSTSRGSC3.4
Celera1113,052,882 - 13,052,981UniSTS
Cytogenetic Map11p11UniSTS
BF404162  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21112,529,051 - 12,529,271 (+)MAPPERmRatBN7.2
Rnor_6.01111,062,967 - 11,063,186NCBIRnor6.0
Rnor_5.01114,733,332 - 14,733,551UniSTSRnor5.0
RGSC_v3.41112,662,492 - 12,662,711UniSTSRGSC3.4
Celera1112,554,856 - 12,555,075UniSTS
Cytogenetic Map11p11UniSTS
RH139722  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21112,531,688 - 12,531,905 (+)MAPPERmRatBN7.2
Rnor_6.01111,065,604 - 11,065,820NCBIRnor6.0
Rnor_5.01114,735,969 - 14,736,185UniSTSRnor5.0
RGSC_v3.41112,665,129 - 12,665,345UniSTSRGSC3.4
Celera1112,557,493 - 12,557,709UniSTS
Cytogenetic Map11p11UniSTS
AU049272  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21112,800,288 - 12,800,522 (+)MAPPERmRatBN7.2
Rnor_6.01111,336,547 - 11,336,780NCBIRnor6.0
Rnor_5.01115,004,743 - 15,004,976UniSTSRnor5.0
RGSC_v3.41112,934,810 - 12,935,043UniSTSRGSC3.4
Celera1112,824,427 - 12,824,660UniSTS
Cytogenetic Map11p11UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634341Bw121Body weight QTL 1213.56abdominal fat pad mass (VT:1000711)abdominal fat pad weight (CMO:0000088)11121836709Rat
1598842Glom10Glomerulus QTL 103.4kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)11135331169Rat
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11169446234Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)11104193166113562Rat
1641927Alcrsp10Alcohol response QTL 10alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)11843667453436674Rat
2290451Scl58Serum cholesterol level QTL 583.48blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)111283104625121472Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1276
Count of miRNA genes:348
Interacting mature miRNAs:490
Transcripts:ENSRNOT00000065748
Prediction methods:Microtar, Miranda, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 6 6 6 64 22 36 6
Low 3 29 49 33 19 33 6 6 10 13 5 5 6
Below cutoff 14 2 2 2 2 4 2

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_032106 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008768537 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008768538 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008768539 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598079 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598080 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598081 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598082 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598083 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598084 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088671 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088672 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088673 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088674 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088675 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088676 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088677 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088678 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088679 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088680 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088681 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088682 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088683 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088684 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088685 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088686 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088687 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088688 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088689 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF182037 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473989 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ481486 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ481487 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000221 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000065748   ⟹   ENSRNOP00000061003
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1112,528,951 - 13,041,536 (-)Ensembl
Rnor_6.0 Ensembl1111,062,790 - 11,214,141 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000066439   ⟹   ENSRNOP00000062759
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1112,784,123 - 13,039,221 (-)Ensembl
Rnor_6.0 Ensembl1111,516,350 - 11,585,765 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000088878   ⟹   ENSRNOP00000070966
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1112,528,951 - 13,041,536 (-)Ensembl
Rnor_6.0 Ensembl1111,063,331 - 11,585,078 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000090497
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1112,528,951 - 13,041,536 (-)Ensembl
Rnor_6.0 Ensembl1111,089,239 - 11,585,378 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000093706   ⟹   ENSRNOP00000076252
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1112,532,041 - 13,041,536 (-)Ensembl
Rnor_6.0 Ensembl1111,067,791 - 11,213,821 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000099822   ⟹   ENSRNOP00000089188
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1112,528,951 - 13,041,536 (-)Ensembl
RefSeq Acc Id: NM_032106   ⟹   NP_115289
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21112,528,951 - 13,039,463 (-)NCBI
Rnor_6.01111,062,866 - 11,585,534 (-)NCBI
Rnor_5.01114,733,231 - 16,280,429 (-)NCBI
RGSC_v3.41112,662,391 - 13,174,865 (-)RGD
Celera1112,554,755 - 13,062,027 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008768538   ⟹   XP_008766760
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21112,528,949 - 13,709,940 (-)NCBI
Rnor_6.01111,062,866 - 12,259,938 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008768539   ⟹   XP_008766761
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21112,528,949 - 13,709,918 (-)NCBI
Rnor_6.01111,062,866 - 12,259,931 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598079   ⟹   XP_017453568
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21112,528,949 - 13,709,953 (-)NCBI
Rnor_6.01111,062,866 - 12,259,941 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598082   ⟹   XP_017453571
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21112,528,949 - 13,709,935 (-)NCBI
Rnor_6.01111,062,866 - 12,259,936 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598084   ⟹   XP_017453573
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21112,528,949 - 13,709,935 (-)NCBI
Rnor_6.01111,062,866 - 12,259,936 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039088671   ⟹   XP_038944599
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21112,528,949 - 13,710,007 (-)NCBI
RefSeq Acc Id: XM_039088672   ⟹   XP_038944600
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21112,528,949 - 13,710,008 (-)NCBI
RefSeq Acc Id: XM_039088673   ⟹   XP_038944601
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21112,528,949 - 13,710,022 (-)NCBI
RefSeq Acc Id: XM_039088674   ⟹   XP_038944602
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21112,528,949 - 14,096,726 (-)NCBI
RefSeq Acc Id: XM_039088675   ⟹   XP_038944603
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21112,528,949 - 13,039,890 (-)NCBI
RefSeq Acc Id: XM_039088676   ⟹   XP_038944604
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21112,528,949 - 13,709,983 (-)NCBI
RefSeq Acc Id: XM_039088677   ⟹   XP_038944605
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21112,528,949 - 13,709,981 (-)NCBI
RefSeq Acc Id: XM_039088678   ⟹   XP_038944606
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21112,528,949 - 13,038,991 (-)NCBI
RefSeq Acc Id: XM_039088679   ⟹   XP_038944607
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21112,528,949 - 13,709,953 (-)NCBI
RefSeq Acc Id: XM_039088680   ⟹   XP_038944608
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21112,528,949 - 13,709,988 (-)NCBI
RefSeq Acc Id: XM_039088681   ⟹   XP_038944609
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21112,528,949 - 13,709,940 (-)NCBI
RefSeq Acc Id: XM_039088682   ⟹   XP_038944610
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21112,528,949 - 13,709,921 (-)NCBI
RefSeq Acc Id: XM_039088683   ⟹   XP_038944611
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21112,528,949 - 13,709,929 (-)NCBI
RefSeq Acc Id: XM_039088684   ⟹   XP_038944612
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21112,528,949 - 13,709,943 (-)NCBI
RefSeq Acc Id: XM_039088685   ⟹   XP_038944613
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21112,528,949 - 13,709,927 (-)NCBI
RefSeq Acc Id: XM_039088686   ⟹   XP_038944614
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21112,528,949 - 13,709,936 (-)NCBI
RefSeq Acc Id: XM_039088687   ⟹   XP_038944615
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21112,528,949 - 13,709,979 (-)NCBI
RefSeq Acc Id: XM_039088688   ⟹   XP_038944616
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21112,528,949 - 13,709,921 (-)NCBI
RefSeq Acc Id: XM_039088689   ⟹   XP_038944617
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21112,528,949 - 13,709,922 (-)NCBI
Protein Sequences
Protein RefSeqs NP_115289 (Get FASTA)   NCBI Sequence Viewer  
  XP_008766760 (Get FASTA)   NCBI Sequence Viewer  
  XP_008766761 (Get FASTA)   NCBI Sequence Viewer  
  XP_017453568 (Get FASTA)   NCBI Sequence Viewer  
  XP_017453571 (Get FASTA)   NCBI Sequence Viewer  
  XP_017453573 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944599 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944600 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944601 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944602 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944603 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944604 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944605 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944606 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944607 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944608 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944609 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944610 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944611 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944612 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944613 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944614 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944615 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944616 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944617 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAF04558 (Get FASTA)   NCBI Sequence Viewer  
  ABG02923 (Get FASTA)   NCBI Sequence Viewer  
  ABG02924 (Get FASTA)   NCBI Sequence Viewer  
  EDM10576 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_115289   ⟸   NM_032106
- Peptide Label: precursor
- Sequence:
RefSeq Acc Id: XP_008766760   ⟸   XM_008768538
- Peptide Label: isoform X11
- Sequence:
RefSeq Acc Id: XP_008766761   ⟸   XM_008768539
- Peptide Label: isoform X22
- Sequence:
RefSeq Acc Id: XP_017453568   ⟸   XM_017598079
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_017453573   ⟸   XM_017598084
- Peptide Label: isoform X18
- Sequence:
RefSeq Acc Id: XP_017453571   ⟸   XM_017598082
- Peptide Label: isoform X12
- Sequence:
RefSeq Acc Id: ENSRNOP00000061003   ⟸   ENSRNOT00000065748
RefSeq Acc Id: ENSRNOP00000076252   ⟸   ENSRNOT00000093706
RefSeq Acc Id: ENSRNOP00000062759   ⟸   ENSRNOT00000066439
RefSeq Acc Id: ENSRNOP00000070966   ⟸   ENSRNOT00000088878
RefSeq Acc Id: XP_038944602   ⟸   XM_039088674
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038944601   ⟸   XM_039088673
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038944600   ⟸   XM_039088672
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038944599   ⟸   XM_039088671
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038944608   ⟸   XM_039088680
- Peptide Label: isoform X13
RefSeq Acc Id: XP_038944604   ⟸   XM_039088676
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038944605   ⟸   XM_039088677
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038944615   ⟸   XM_039088687
- Peptide Label: isoform X21
RefSeq Acc Id: XP_038944607   ⟸   XM_039088679
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038944612   ⟸   XM_039088684
- Peptide Label: isoform X17
RefSeq Acc Id: XP_038944609   ⟸   XM_039088681
- Peptide Label: isoform X14
RefSeq Acc Id: XP_038944614   ⟸   XM_039088686
- Peptide Label: isoform X20
RefSeq Acc Id: XP_038944611   ⟸   XM_039088683
- Peptide Label: isoform X16
RefSeq Acc Id: XP_038944613   ⟸   XM_039088685
- Peptide Label: isoform X19
RefSeq Acc Id: XP_038944617   ⟸   XM_039088689
- Peptide Label: isoform X24
RefSeq Acc Id: XP_038944616   ⟸   XM_039088688
- Peptide Label: isoform X23
RefSeq Acc Id: XP_038944610   ⟸   XM_039088682
- Peptide Label: isoform X15
RefSeq Acc Id: XP_038944603   ⟸   XM_039088675
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038944606   ⟸   XM_039088678
- Peptide Label: isoform X9
RefSeq Acc Id: ENSRNOP00000089188   ⟸   ENSRNOT00000099822
Protein Domains
Fibronectin type-III   Ig-like

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13698010
Promoter ID:EPDNEW_R8527
Type:multiple initiation site
Name:Robo2_1
Description:roundabout guidance receptor 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01111,585,685 - 11,585,745EPDNEW

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)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: mRatBN7.2

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
11 12981314 12981315 G T snv LL/MavRrrcAek (2020)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
11 11070020 11070021 G C snv M520/N (MCW)
11 11078294 11078295 G C snv F344/NCrl (RGD)
11 11516875 11516876 G T snv LL/MavRrrcAek (2020), LL/MavRrrc (RGD)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620167 AgrOrtholog
Ensembl Genes ENSRNOG00000029598 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000061003 UniProtKB/TrEMBL
  ENSRNOP00000062759 UniProtKB/TrEMBL
  ENSRNOP00000070966 UniProtKB/TrEMBL
  ENSRNOP00000076252 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000065748 UniProtKB/TrEMBL
  ENSRNOT00000066439 UniProtKB/TrEMBL
  ENSRNOT00000088878 UniProtKB/TrEMBL
  ENSRNOT00000093706 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
InterPro Fibronectin_type3 UniProtKB/TrEMBL
  FN3_sf UniProtKB/TrEMBL
  Ig-like_dom UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Ig_I-set UniProtKB/TrEMBL
  Ig_sub UniProtKB/TrEMBL
  Ig_sub2 UniProtKB/TrEMBL
  Ig_V-set UniProtKB/TrEMBL
  Robo1 UniProtKB/TrEMBL
KEGG Report rno:84409 UniProtKB/TrEMBL
NCBI Gene 84409 ENTREZGENE
PANTHER PTHR12231:SF243 UniProtKB/TrEMBL
Pfam fn3 UniProtKB/TrEMBL
  I-set UniProtKB/TrEMBL
PhenoGen Robo2 PhenoGen
PROSITE FN3 UniProtKB/TrEMBL
  IG_LIKE UniProtKB/TrEMBL
SMART FN3 UniProtKB/TrEMBL
  IGc2 UniProtKB/TrEMBL
  IGv UniProtKB/TrEMBL
  SM00409 UniProtKB/TrEMBL
Superfamily-SCOP FN_III-like UniProtKB/TrEMBL
  SSF48726 UniProtKB/TrEMBL
UniProt A0A0G2JZA1_RAT UniProtKB/TrEMBL
  A0A1W2Q6F3_RAT UniProtKB/TrEMBL
  D3ZEC8_RAT UniProtKB/TrEMBL
  F1M950_RAT UniProtKB/TrEMBL
  Q9QZI3_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-07-01 Robo2  roundabout guidance receptor 2  Robo2  roundabout, axon guidance receptor, homolog 2 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-07-12 Robo2  roundabout, axon guidance receptor, homolog 2 (Drosophila)  Robo2  roundabout homolog 2 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-01-14 Robo2  roundabout homolog 2 (Drosophila)  Robo2  roundabout, axon guidance receptor, homolog 2 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-22 Robo2  roundabout, axon guidance receptor, homolog 2 (Drosophila)  Robo2  roundabout homolog 2 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-11-17 Robo2  roundabout homolog 2 (Drosophila)    roundabout 2 (Drosophila)  Name updated 1299863 APPROVED
2005-01-20 Robo2  roundabout 2 (Drosophila)    roundabout (axon guidance receptor, Drosophila) homolog 2  Name updated 1299863 APPROVED
2002-08-07 Robo2  roundabout (axon guidance receptor, Drosophila) homolog 2      Symbol and Name status set to provisional 70820 PROVISIONAL