Rbfox2 (RNA binding fox-1 homolog 2) - Rat Genome Database

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Gene: Rbfox2 (RNA binding fox-1 homolog 2) Rattus norvegicus
Analyze
Symbol: Rbfox2
Name: RNA binding fox-1 homolog 2
RGD ID: 1311838
Description: Predicted to enable DNA-binding transcription factor binding activity; mRNA binding activity; and transcription corepressor activity. Predicted to be involved in several processes, including intracellular estrogen receptor signaling pathway; regulation of RNA metabolic process; and regulation of definitive erythrocyte differentiation. Predicted to act upstream of or within several processes, including alternative mRNA splicing, via spliceosome; nervous system development; and regulation of heart rate by cardiac conduction. Predicted to be located in cytosol and nucleoplasm. Predicted to be active in cytoplasm and nucleus. Orthologous to human RBFOX2 (RNA binding fox-1 homolog 2); INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-Tetrachlorodibenzofuran; atrazine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: fox-1 homolog B; LOC362950; MGC156775; Rbm9; RNA binding motif protein 9; RNA binding protein fox-1 homolog 2; RNA binding protein, fox-1 homolog (C. elegans) 2; RNA binding protein, fox-1 homolog 2; RNA-binding motif protein 9; RNA-binding protein 9; RNA-binding protein FOX2
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
mRatBN7.27108,810,627 - 109,054,420 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl7108,810,628 - 109,054,691 (-)Ensembl
Rnor_6.07118,157,093 - 118,396,733 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7118,156,946 - 118,396,728 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07118,149,473 - 118,388,515 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47115,143,721 - 115,384,534 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17115,176,300 - 115,250,419 (-)NCBI
Celera7105,163,071 - 105,401,893 (-)NCBICelera
Cytogenetic Map7q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

References

Additional References at PubMed
PMID:11401487   PMID:11875103   PMID:12477932   PMID:17101796   PMID:17715393   PMID:18381283   PMID:19075228   PMID:21177649   PMID:22357600   PMID:22658674   PMID:22681889   PMID:28855650  
PMID:30361391   PMID:31778749   PMID:34022289  


Genomics

Comparative Map Data
Rbfox2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27108,810,627 - 109,054,420 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl7108,810,628 - 109,054,691 (-)Ensembl
Rnor_6.07118,157,093 - 118,396,733 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7118,156,946 - 118,396,728 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07118,149,473 - 118,388,515 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47115,143,721 - 115,384,534 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17115,176,300 - 115,250,419 (-)NCBI
Celera7105,163,071 - 105,401,893 (-)NCBICelera
Cytogenetic Map7q34NCBI
RBFOX2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2235,738,736 - 36,028,824 (-)EnsemblGRCh38hg38GRCh38
GRCh382235,738,736 - 36,028,892 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372236,134,783 - 36,424,872 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362234,464,729 - 34,754,531 (-)NCBINCBI36hg18NCBI36
Build 342234,464,148 - 34,560,928NCBI
Celera2219,937,385 - 20,227,179 (-)NCBI
Cytogenetic Map22q12.3NCBI
HuRef2219,102,245 - 19,391,883 (-)NCBIHuRef
CHM1_12236,093,705 - 36,383,622 (-)NCBICHM1_1
Rbfox2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391576,963,190 - 77,193,058 (-)NCBIGRCm39mm39
GRCm39 Ensembl1576,963,190 - 77,191,204 (-)Ensembl
GRCm381577,078,990 - 77,308,434 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1577,078,990 - 77,307,004 (-)EnsemblGRCm38mm10GRCm38
MGSCv371576,909,420 - 77,137,483 (-)NCBIGRCm37mm9NCBIm37
MGSCv361576,909,594 - 77,134,183 (-)NCBImm8
Celera1578,567,062 - 78,795,167 (-)NCBICelera
Cytogenetic Map15D3NCBI
Rbfox2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541322,035,837 - 22,287,763 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541322,034,048 - 22,288,430 (-)NCBIChiLan1.0ChiLan1.0
RBFOX2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12234,580,587 - 34,870,251 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2234,586,044 - 34,870,257 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02216,740,707 - 17,031,415 (-)NCBIMhudiblu_PPA_v0panPan3
RBFOX2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11028,284,836 - 28,494,618 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1028,192,683 - 28,489,114 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1028,161,477 - 28,434,719 (+)NCBI
ROS_Cfam_1.01029,006,984 - 29,281,227 (+)NCBI
ROS_Cfam_1.0 Ensembl1029,006,281 - 29,281,225 (+)Ensembl
UMICH_Zoey_3.11028,733,191 - 29,007,048 (+)NCBI
UNSW_CanFamBas_1.01029,042,160 - 29,315,956 (+)NCBI
UU_Cfam_GSD_1.01029,220,620 - 29,496,217 (+)NCBI
Rbfox2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494511,613,596 - 11,816,299 (+)NCBI
SpeTri2.0NW_0049364924,624,013 - 4,826,715 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RBFOX2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl511,633,519 - 11,905,311 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1511,633,523 - 11,905,325 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.259,682,598 - 9,774,702 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RBFOX2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11918,507,184 - 18,801,535 (-)NCBIChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666045107,097,992 - 107,393,837 (+)NCBIVero_WHO_p1.0
Rbfox2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475211,766,033 - 12,027,804 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH125714  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27108,813,975 - 108,814,231 (+)MAPPERmRatBN7.2
Rnor_6.07118,154,817 - 118,155,072NCBIRnor6.0
Rnor_5.07118,147,197 - 118,147,452UniSTSRnor5.0
RGSC_v3.47115,142,081 - 115,142,336UniSTSRGSC3.4
Celera7105,161,431 - 105,161,686UniSTS
Cytogenetic Map7q34UniSTS
R75115  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.07118,149,461 - 118,149,644NCBIRnor5.0
RGSC_v3.47115,143,710 - 115,143,892UniSTSRGSC3.4
Celera7105,163,060 - 105,163,242UniSTS
Cytogenetic Map7q34UniSTS
BF388412  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27108,814,076 - 108,814,269 (+)MAPPERmRatBN7.2
Rnor_6.07118,154,918 - 118,155,110NCBIRnor6.0
Rnor_5.07118,147,298 - 118,147,490UniSTSRnor5.0
RGSC_v3.47115,142,182 - 115,142,374UniSTSRGSC3.4
Celera7105,161,532 - 105,161,724UniSTS
RH 3.4 Map7801.1UniSTS
Cytogenetic Map7q34UniSTS
BF397437  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27109,017,481 - 109,017,637 (+)MAPPERmRatBN7.2
Rnor_6.07118,359,715 - 118,359,870NCBIRnor6.0
Rnor_5.07118,351,494 - 118,351,649UniSTSRnor5.0
RGSC_v3.47115,347,579 - 115,347,734UniSTSRGSC3.4
Celera7105,365,143 - 105,365,298UniSTS
RH 3.4 Map7816.6UniSTS
Cytogenetic Map7q34UniSTS


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
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)741333674119109060Rat
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)743747012135012528Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)744421311118198041Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)764002457135012528Rat
2316947Rf58Renal function QTL 587.8kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)768938720113886318Rat
2316952Pur22Proteinuria QTL 225.2urine protein amount (VT:0005160)urine protein level (CMO:0000591)768938720113886318Rat
2316955Stl24Serum triglyceride level QTL 247.1blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)768938720113886318Rat
631540Bw9Body weight QTL 94.5body mass (VT:0001259)body weight (CMO:0000012)769736226117455174Rat
1357338Stl17Serum triglyceride level QTL 173.23blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)769736356112729554Rat
634331Pia17Pristane induced arthritis QTL 174.7joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)773829340130221005Rat
7411654Foco25Food consumption QTL 259.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)775918751120918751Rat
7411607Foco15Food consumption QTL 150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)775918751120918751Rat
631529Tls2T-lymphoma susceptibility QTL 200.001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)780221299109401111Rat
1331746Kidm9Kidney mass QTL 93.934kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)780221299112308525Rat
1331728Bp214Blood pressure QTL 2142.825arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)780221299124373579Rat
1331768Kidm10Kidney mass QTL 104.62096kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)780221299125221299Rat
2317052Aia17Adjuvant induced arthritis QTL 172.13joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)781737938126737938Rat
634322Bw12Body weight QTL 120body mass (VT:0001259)body weight (CMO:0000012)783153392128153392Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
71114Niddm14Non-insulin dependent diabetes mellitus QTL 144.5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)784257275129257275Rat
2298475Eau6Experimental allergic uveoretinitis QTL 60.0029uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)784257275129257275Rat
1558655Swd4Spike wave discharge measurement QTL 43.680.0002brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge severity grade (CMO:0001988)786983365131983365Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)790482196135012528Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)791281130135012528Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)791412594129807172Rat
2313102Bmd79Bone mineral density QTL 792.30.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)794811085116738842Rat
1357336Gluco6Glucose level QTL 63.4blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)794811326116294265Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)796670164135012528Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7102297359133492884Rat
70159Bp61Blood pressure QTL 610.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7103146217116738842Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7104603555135012528Rat
2306821Bp335Blood pressure QTL 3350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7106571501135012528Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:26
Count of miRNA genes:26
Interacting mature miRNAs:26
Transcripts:ENSRNOT00000066431
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 41 15 6 1 6 8 11 74 23 36 11 8
Low 3 2 42 35 18 35 12 5
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001079895 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241828 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241829 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241830 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241831 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241832 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241833 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241834 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241835 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241836 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241837 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241838 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241839 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241840 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241841 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241842 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241843 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241845 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241846 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241847 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241848 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241849 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241850 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008765585 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008765586 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594974 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594975 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594976 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079562 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079563 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079564 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079566 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079567 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079568 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079569 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079571 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079572 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079573 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005486676 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC128766 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473950 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224384 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000186 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  MF177287 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000066431   ⟹   ENSRNOP00000063462
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7108,815,619 - 109,054,403 (-)Ensembl
Rnor_6.0 Ensembl7118,157,096 - 118,396,728 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000090370   ⟹   ENSRNOP00000070842
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7108,815,416 - 108,898,236 (-)Ensembl
Rnor_6.0 Ensembl7118,156,946 - 118,332,577 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000098506   ⟹   ENSRNOP00000090738
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7108,813,965 - 109,054,691 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000102503   ⟹   ENSRNOP00000079386
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7108,813,899 - 108,887,735 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000113975   ⟹   ENSRNOP00000081980
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7108,810,628 - 108,887,735 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000114650   ⟹   ENSRNOP00000085442
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7108,817,080 - 109,054,403 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000115642   ⟹   ENSRNOP00000077840
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7108,813,965 - 108,939,717 (-)Ensembl
RefSeq Acc Id: NM_001079895   ⟹   NP_001073364
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,815,616 - 109,054,403 (-)NCBI
Rnor_6.07118,157,093 - 118,396,728 (-)NCBI
Rnor_5.07118,149,473 - 118,388,515 (-)NCBI
RGSC_v3.47115,143,721 - 115,384,534 (-)RGD
Celera7105,163,071 - 105,401,893 (-)RGD
Sequence:
RefSeq Acc Id: XM_006241828   ⟹   XP_006241890
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 109,054,420 (-)NCBI
Rnor_6.07118,157,131 - 118,396,733 (-)NCBI
Rnor_5.07118,149,473 - 118,388,515 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006241829   ⟹   XP_006241891
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 109,054,420 (-)NCBI
Rnor_6.07118,157,131 - 118,396,733 (-)NCBI
Rnor_5.07118,149,473 - 118,388,515 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006241830   ⟹   XP_006241892
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 109,054,420 (-)NCBI
Rnor_6.07118,157,131 - 118,396,733 (-)NCBI
Rnor_5.07118,149,473 - 118,388,515 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006241831   ⟹   XP_006241893
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 109,054,420 (-)NCBI
Rnor_6.07118,157,131 - 118,396,733 (-)NCBI
Rnor_5.07118,149,473 - 118,388,515 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006241832   ⟹   XP_006241894
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 109,054,420 (-)NCBI
Rnor_6.07118,157,131 - 118,396,733 (-)NCBI
Rnor_5.07118,149,473 - 118,388,515 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006241833   ⟹   XP_006241895
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 109,054,420 (-)NCBI
Rnor_6.07118,157,131 - 118,396,733 (-)NCBI
Rnor_5.07118,149,473 - 118,388,515 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006241834   ⟹   XP_006241896
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 109,054,420 (-)NCBI
Rnor_6.07118,157,131 - 118,396,733 (-)NCBI
Rnor_5.07118,149,473 - 118,388,515 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006241835   ⟹   XP_006241897
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 109,054,420 (-)NCBI
Rnor_6.07118,157,131 - 118,396,733 (-)NCBI
Rnor_5.07118,149,473 - 118,388,515 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006241836   ⟹   XP_006241898
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 109,054,420 (-)NCBI
Rnor_6.07118,157,131 - 118,396,733 (-)NCBI
Rnor_5.07118,149,473 - 118,388,515 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006241837   ⟹   XP_006241899
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 109,054,420 (-)NCBI
Rnor_6.07118,157,131 - 118,396,733 (-)NCBI
Rnor_5.07118,149,473 - 118,388,515 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006241838   ⟹   XP_006241900
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 109,054,420 (-)NCBI
Rnor_6.07118,157,131 - 118,396,733 (-)NCBI
Rnor_5.07118,149,473 - 118,388,515 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006241839   ⟹   XP_006241901
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 109,054,420 (-)NCBI
Rnor_6.07118,157,131 - 118,396,733 (-)NCBI
Rnor_5.07118,149,473 - 118,388,515 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006241840   ⟹   XP_006241902
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 109,054,420 (-)NCBI
Rnor_6.07118,157,131 - 118,396,733 (-)NCBI
Rnor_5.07118,149,473 - 118,388,515 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006241841   ⟹   XP_006241903
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 109,054,420 (-)NCBI
Rnor_6.07118,157,131 - 118,396,733 (-)NCBI
Rnor_5.07118,149,473 - 118,388,515 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006241842   ⟹   XP_006241904
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 108,990,712 (-)NCBI
Rnor_6.07118,157,131 - 118,338,827 (-)NCBI
Rnor_5.07118,149,473 - 118,388,515 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006241843   ⟹   XP_006241905
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 109,054,420 (-)NCBI
Rnor_6.07118,157,131 - 118,396,733 (-)NCBI
Rnor_5.07118,149,473 - 118,388,515 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006241845   ⟹   XP_006241907
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 108,887,776 (-)NCBI
Rnor_6.07118,157,131 - 118,228,385 (-)NCBI
Rnor_5.07118,149,473 - 118,388,515 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006241846   ⟹   XP_006241908
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 108,887,761 (-)NCBI
Rnor_6.07118,157,131 - 118,228,388 (-)NCBI
Rnor_5.07118,149,473 - 118,388,515 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006241847   ⟹   XP_006241909
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 108,887,753 (-)NCBI
Rnor_6.07118,157,131 - 118,228,385 (-)NCBI
Rnor_5.07118,149,473 - 118,388,515 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006241848   ⟹   XP_006241910
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 108,939,586 (-)NCBI
Rnor_6.07118,157,131 - 118,279,968 (-)NCBI
Rnor_5.07118,149,473 - 118,388,515 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006241850   ⟹   XP_006241912
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,817,624 - 109,054,420 (-)NCBI
Rnor_6.07118,168,569 - 118,396,733 (-)NCBI
Rnor_5.07118,149,473 - 118,388,515 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017594974   ⟹   XP_017450463
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 109,054,420 (-)NCBI
Rnor_6.07118,157,131 - 118,396,733 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017594975   ⟹   XP_017450464
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 108,990,705 (-)NCBI
Rnor_6.07118,157,131 - 118,338,826 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017594976   ⟹   XP_017450465
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 109,054,420 (-)NCBI
Rnor_6.07118,157,131 - 118,396,733 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039079562   ⟹   XP_038935490
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 109,054,420 (-)NCBI
RefSeq Acc Id: XM_039079563   ⟹   XP_038935491
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 109,054,420 (-)NCBI
RefSeq Acc Id: XM_039079564   ⟹   XP_038935492
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 108,897,891 (-)NCBI
RefSeq Acc Id: XM_039079566   ⟹   XP_038935494
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 108,887,750 (-)NCBI
RefSeq Acc Id: XM_039079567   ⟹   XP_038935495
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 108,899,703 (-)NCBI
RefSeq Acc Id: XM_039079568   ⟹   XP_038935496
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 108,887,405 (-)NCBI
RefSeq Acc Id: XM_039079569   ⟹   XP_038935497
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 108,887,752 (-)NCBI
RefSeq Acc Id: XM_039079571   ⟹   XP_038935499
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 108,887,764 (-)NCBI
RefSeq Acc Id: XM_039079572   ⟹   XP_038935500
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,837,484 - 109,054,420 (-)NCBI
RefSeq Acc Id: XM_039079573   ⟹   XP_038935501
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,837,484 - 109,054,420 (-)NCBI
RefSeq Acc Id: XR_005486676
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27108,810,627 - 109,054,420 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001073364 (Get FASTA)   NCBI Sequence Viewer  
  XP_006241890 (Get FASTA)   NCBI Sequence Viewer  
  XP_006241891 (Get FASTA)   NCBI Sequence Viewer  
  XP_006241892 (Get FASTA)   NCBI Sequence Viewer  
  XP_006241893 (Get FASTA)   NCBI Sequence Viewer  
  XP_006241894 (Get FASTA)   NCBI Sequence Viewer  
  XP_006241895 (Get FASTA)   NCBI Sequence Viewer  
  XP_006241896 (Get FASTA)   NCBI Sequence Viewer  
  XP_006241897 (Get FASTA)   NCBI Sequence Viewer  
  XP_006241898 (Get FASTA)   NCBI Sequence Viewer  
  XP_006241899 (Get FASTA)   NCBI Sequence Viewer  
  XP_006241900 (Get FASTA)   NCBI Sequence Viewer  
  XP_006241901 (Get FASTA)   NCBI Sequence Viewer  
  XP_006241902 (Get FASTA)   NCBI Sequence Viewer  
  XP_006241903 (Get FASTA)   NCBI Sequence Viewer  
  XP_006241904 (Get FASTA)   NCBI Sequence Viewer  
  XP_006241905 (Get FASTA)   NCBI Sequence Viewer  
  XP_006241907 (Get FASTA)   NCBI Sequence Viewer  
  XP_006241908 (Get FASTA)   NCBI Sequence Viewer  
  XP_006241909 (Get FASTA)   NCBI Sequence Viewer  
  XP_006241910 (Get FASTA)   NCBI Sequence Viewer  
  XP_006241912 (Get FASTA)   NCBI Sequence Viewer  
  XP_017450463 (Get FASTA)   NCBI Sequence Viewer  
  XP_017450464 (Get FASTA)   NCBI Sequence Viewer  
  XP_017450465 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935490 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935491 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935492 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935494 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935495 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935496 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935497 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935499 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935500 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935501 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein A1A5R1 (Get FASTA)   NCBI Sequence Viewer  
  AAI28767 (Get FASTA)   NCBI Sequence Viewer  
  ASZ84975 (Get FASTA)   NCBI Sequence Viewer  
  EDM15916 (Get FASTA)   NCBI Sequence Viewer  
  EDM15917 (Get FASTA)   NCBI Sequence Viewer  
  EDM15918 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001073364   ⟸   NM_001079895
- UniProtKB: A1A5R1 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006241896   ⟸   XM_006241834
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_006241905   ⟸   XM_006241843
- Peptide Label: isoform X19
- Sequence:
RefSeq Acc Id: XP_006241899   ⟸   XM_006241837
- Peptide Label: isoform X12
- Sequence:
RefSeq Acc Id: XP_006241894   ⟸   XM_006241832
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006241892   ⟸   XM_006241830
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006241903   ⟸   XM_006241841
- Peptide Label: isoform X16
- Sequence:
RefSeq Acc Id: XP_006241891   ⟸   XM_006241829
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006241902   ⟸   XM_006241840
- Peptide Label: isoform X15
- Sequence:
RefSeq Acc Id: XP_006241901   ⟸   XM_006241839
- Peptide Label: isoform X14
- Sequence:
RefSeq Acc Id: XP_006241897   ⟸   XM_006241835
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_006241898   ⟸   XM_006241836
- Peptide Label: isoform X10
- Sequence:
RefSeq Acc Id: XP_006241893   ⟸   XM_006241831
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006241900   ⟸   XM_006241838
- Peptide Label: isoform X13
- Sequence:
RefSeq Acc Id: XP_006241895   ⟸   XM_006241833
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_006241890   ⟸   XM_006241828
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006241904   ⟸   XM_006241842
- Peptide Label: isoform X18
- Sequence:
RefSeq Acc Id: XP_006241910   ⟸   XM_006241848
- Peptide Label: isoform X23
- Sequence:
RefSeq Acc Id: XP_006241908   ⟸   XM_006241846
- Peptide Label: isoform X21
- Sequence:
RefSeq Acc Id: XP_006241907   ⟸   XM_006241845
- Peptide Label: isoform X30
- Sequence:
RefSeq Acc Id: XP_006241909   ⟸   XM_006241847
- Peptide Label: isoform X22
- Sequence:
RefSeq Acc Id: XP_006241912   ⟸   XM_006241850
- Peptide Label: isoform X24
- Sequence:
RefSeq Acc Id: XP_017450463   ⟸   XM_017594974
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_017450465   ⟸   XM_017594976
- Peptide Label: isoform X33
- Sequence:
RefSeq Acc Id: XP_017450464   ⟸   XM_017594975
- Peptide Label: isoform X27
- Sequence:
RefSeq Acc Id: ENSRNOP00000070842   ⟸   ENSRNOT00000090370
RefSeq Acc Id: ENSRNOP00000063462   ⟸   ENSRNOT00000066431
RefSeq Acc Id: XP_038935491   ⟸   XM_039079563
- Peptide Label: isoform X17
RefSeq Acc Id: XP_038935490   ⟸   XM_039079562
- Peptide Label: isoform X11
RefSeq Acc Id: XP_038935495   ⟸   XM_039079567
- Peptide Label: isoform X26
RefSeq Acc Id: XP_038935492   ⟸   XM_039079564
- Peptide Label: isoform X20
RefSeq Acc Id: XP_038935499   ⟸   XM_039079571
- Peptide Label: isoform X29
RefSeq Acc Id: XP_038935497   ⟸   XM_039079569
- Peptide Label: isoform X28
RefSeq Acc Id: XP_038935494   ⟸   XM_039079566
- Peptide Label: isoform X25
RefSeq Acc Id: XP_038935496   ⟸   XM_039079568
- Peptide Label: isoform X27
RefSeq Acc Id: XP_038935501   ⟸   XM_039079573
- Peptide Label: isoform X32
RefSeq Acc Id: XP_038935500   ⟸   XM_039079572
- Peptide Label: isoform X31
RefSeq Acc Id: ENSRNOP00000081980   ⟸   ENSRNOT00000113975
RefSeq Acc Id: ENSRNOP00000079386   ⟸   ENSRNOT00000102503
RefSeq Acc Id: ENSRNOP00000085442   ⟸   ENSRNOT00000114650
RefSeq Acc Id: ENSRNOP00000090738   ⟸   ENSRNOT00000098506
RefSeq Acc Id: ENSRNOP00000077840   ⟸   ENSRNOT00000115642
Protein Domains
RRM

Transcriptome

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

Promoters
RGD ID:13695444
Promoter ID:EPDNEW_R5969
Type:initiation region
Name:Rbfox2_2
Description:RNA binding fox-1 homolog 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R5970  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07118,396,338 - 118,396,398EPDNEW
RGD ID:13695446
Promoter ID:EPDNEW_R5970
Type:multiple initiation site
Name:Rbfox2_1
Description:RNA binding fox-1 homolog 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R5969  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07118,396,642 - 118,396,702EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
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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)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
F344/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/FarMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (RGD)
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)
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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)
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)
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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)
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)
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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)
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)
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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)
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)
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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)
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)
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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)
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)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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)
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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)
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)
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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)
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
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
7 118158708 118158709 A C snv LEW/Crl (RGD)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311838 AgrOrtholog
Ensembl Genes ENSRNOG00000004688 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000063462 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000070842 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000079386 ENTREZGENE
  ENSRNOP00000090738 ENTREZGENE
Ensembl Transcript ENSRNOT00000066431 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000090370 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000098506 ENTREZGENE
  ENSRNOT00000102503 ENTREZGENE
  ENSRNOT00000113975 ENTREZGENE
Gene3D-CATH 3.30.70.330 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7123798 IMAGE-MGC_LOAD
InterPro Fox-1_C_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FOX1_RRM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nucleotide-bd_a/b_plait_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RBD_domain_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RNA-bd_Fox-1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RRM_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:362950 UniProtKB/Swiss-Prot
MGC_CLONE MGC:156775 IMAGE-MGC_LOAD
NCBI Gene 362950 ENTREZGENE
Pfam Fox-1_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RRM_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Rbfox2 PhenoGen
PIRSF Ataxin_2_bd_A2BP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE RRM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART RRM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF54928 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JYY7_RAT UniProtKB/TrEMBL
  A0A249Y6E1_RAT UniProtKB/TrEMBL
  A1A5R1 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-09-28 Rbfox2  RNA binding fox-1 homolog 2  Rbfox2  RNA binding protein, fox-1 homolog 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-04-27 Rbfox2  RNA binding protein, fox-1 homolog 2  Rbfox2  RNA binding protein, fox-1 homolog (C. elegans) 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-10-10 Rbfox2  RNA binding protein, fox-1 homolog (C. elegans) 2  Rbm9  RNA binding motif protein 9  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Rbm9  RNA binding motif protein 9   Rbm9_predicted  RNA binding motif protein 9 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Rbm9_predicted  RNA binding motif protein 9 (predicted)      Symbol and Name status set to approved 70820 APPROVED