Celf2 (CUGBP, Elav-like family member 2) - Rat Genome Database

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Gene: Celf2 (CUGBP, Elav-like family member 2) Rattus norvegicus
Analyze
Symbol: Celf2
Name: CUGBP, Elav-like family member 2
RGD ID: 68347
Description: Exhibits mRNA 3'-UTR binding activity. Involved in posttranscriptional gene silencing. Predicted to localize to several cellular components, including Flemming body; nucleoplasm; and ribonucleoprotein complex. Orthologous to human CELF2 (CUGBP Elav-like family member 2); INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 17beta-estradiol 3-benzoate.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: bruno-like protein 3; Brunol3; CUG triplet repeat RNA-binding protein 2; CUG triplet repeat, RNA binding protein 2; CUG triplet repeat,RNA-binding protein 2; CUG-BP- and ETR-3-like factor 2; CUGBP Elav-like family member 2; Cugbp- and Etr3-like factor 2; Cugbp2; elav-type RNA-binding protein 3; Etr3; Napor; neuroblastoma apoptosis-related RNA-binding protein; RNA-binding protein BRUNOL-3; RNA-binding protein Brunol3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21770,904,462 - 71,729,072 (+)NCBI
Rnor_6.0 Ensembl1775,352,389 - 75,654,951 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01775,259,269 - 75,660,154 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01776,413,318 - 77,317,256 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41782,708,354 - 83,025,139 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11782,719,196 - 83,036,540 (+)NCBI
Celera1770,868,671 - 71,183,253 (+)NCBICelera
Cytogenetic Map17q12.3NCBI
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
(S)-colchicine  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2-butoxyethanol  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4-hydroxyphenyl retinamide  (ISO)
aflatoxin B1  (ISO)
aflatoxin B2  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
arsenite(3-)  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
carbon nanotube  (ISO)
cerium trichloride  (ISO)
chlorpyrifos  (EXP)
cisplatin  (EXP,ISO)
clofibrate  (ISO)
cobalt dichloride  (ISO)
crocidolite asbestos  (ISO)
dexamethasone  (ISO)
diazinon  (EXP)
dibutyl phthalate  (ISO)
diethylstilbestrol  (EXP)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
entinostat  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
furan  (EXP)
gentamycin  (EXP)
isotretinoin  (ISO)
lithium chloride  (ISO)
mercury dichloride  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
mitoxantrone  (ISO)
N-nitrosodimethylamine  (EXP)
nickel atom  (ISO)
nitroglycerin  (EXP)
oxaliplatin  (EXP)
p-menthan-3-ol  (ISO)
paracetamol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
permethrin  (ISO)
pirinixic acid  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
succimer  (ISO)
tamoxifen  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (EXP)
topotecan  (EXP)
tremolite asbestos  (ISO)
tributylstannane  (EXP)
trichloroethene  (EXP)
trichostatin A  (ISO)
triptonide  (ISO)
valproic acid  (EXP,ISO)
venlafaxine hydrochloride  (EXP)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:11158314   PMID:12477932   PMID:15830352   PMID:16095752   PMID:17855367   PMID:19075228   PMID:22681889   PMID:22871113   PMID:23661609   PMID:26166732   PMID:28763438  


Genomics

Comparative Map Data
Celf2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21770,904,462 - 71,729,072 (+)NCBI
Rnor_6.0 Ensembl1775,352,389 - 75,654,951 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01775,259,269 - 75,660,154 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01776,413,318 - 77,317,256 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41782,708,354 - 83,025,139 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11782,719,196 - 83,036,540 (+)NCBI
Celera1770,868,671 - 71,183,253 (+)NCBICelera
Cytogenetic Map17q12.3NCBI
CELF2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1010,798,397 - 11,336,675 (+)EnsemblGRCh38hg38GRCh38
GRCh381010,462,515 - 11,336,675 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371010,504,513 - 11,378,674 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361011,087,265 - 11,418,680 (+)NCBINCBI36hg18NCBI36
Build 341011,100,075 - 11,416,358NCBI
Celera1010,975,495 - 11,308,195 (+)NCBI
Cytogenetic Map10p14NCBI
HuRef1010,966,021 - 11,297,937 (+)NCBIHuRef
CHM1_11011,047,369 - 11,378,601 (+)NCBICHM1_1
Celf2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3926,544,505 - 7,401,345 (-)NCBIGRCm39mm39
GRCm39 Ensembl26,544,505 - 7,514,374 (-)Ensembl
GRCm3826,539,694 - 7,396,341 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl26,539,694 - 7,509,563 (-)EnsemblGRCm38mm10GRCm38
MGSCv3726,460,740 - 7,317,825 (-)NCBIGRCm37mm9NCBIm37
MGSCv3626,459,141 - 6,802,241 (-)NCBImm8
Celera26,477,339 - 7,334,016 (-)NCBICelera
Cytogenetic Map2A1NCBI
Celf2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542126,992,734 - 27,374,850 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542127,064,497 - 27,374,850 (+)NCBIChiLan1.0ChiLan1.0
CELF2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11010,465,313 - 11,330,504 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1010,793,682 - 11,330,504 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01010,478,500 - 11,346,255 (+)NCBIMhudiblu_PPA_v0panPan3
CELF2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1225,003,810 - 25,818,264 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl225,004,580 - 25,520,136 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha222,032,688 - 22,846,510 (-)NCBI
ROS_Cfam_1.0225,374,071 - 26,188,860 (-)NCBI
UMICH_Zoey_3.1222,498,996 - 23,311,877 (-)NCBI
UNSW_CanFamBas_1.0223,346,244 - 24,156,578 (-)NCBI
UU_Cfam_GSD_1.0224,058,291 - 24,872,314 (-)NCBI
Celf2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934427,739,556 - 28,516,769 (-)NCBI
SpeTri2.0NW_0049364843,904,726 - 4,401,560 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CELF2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1060,506,482 - 61,084,861 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11060,504,925 - 60,867,631 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21066,358,580 - 66,405,357 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CELF2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1910,534,623 - 11,395,516 (+)NCBI
ChlSab1.1 Ensembl911,080,404 - 11,388,136 (+)Ensembl
Vero_WHO_p1.0NW_02366605116,023,662 - 16,890,330 (+)NCBI
Celf2
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247756,017,713 - 6,557,684 (+)NCBI

Position Markers
D17Rat180  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01775,380,466 - 75,380,705NCBIRnor6.0
Rnor_5.01777,037,915 - 77,038,154UniSTSRnor5.0
RGSC_v3.41782,750,184 - 82,750,424RGDRGSC3.4
RGSC_v3.41782,750,185 - 82,750,424UniSTSRGSC3.4
RGSC_v3.11782,761,017 - 82,761,257RGD
Celera1770,909,188 - 70,909,413UniSTS
FHH x ACI Map1757.6699UniSTS
FHH x ACI Map1757.6699RGD
Cytogenetic Map17q12.3UniSTS
BF402956  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01775,448,529 - 75,448,672NCBIRnor6.0
Rnor_5.01777,105,631 - 77,105,774UniSTSRnor5.0
RH 3.4 Map17715.8UniSTS
Cytogenetic Map17q12.3UniSTS
BE095613  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01775,626,212 - 75,626,364NCBIRnor6.0
Rnor_5.01777,283,314 - 77,283,466UniSTSRnor5.0
RGSC_v3.41782,996,169 - 82,996,321UniSTSRGSC3.4
Celera1771,154,283 - 71,154,435UniSTS
RH 3.4 Map17716.3UniSTS
Cytogenetic Map17q12.3UniSTS
BF388238  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01775,449,286 - 75,449,447NCBIRnor6.0
Rnor_5.01777,106,388 - 77,106,549UniSTSRnor5.0
RGSC_v3.41782,817,359 - 82,817,520UniSTSRGSC3.4
Celera1770,977,565 - 70,977,726UniSTS
RH 3.4 Map17713.7UniSTS
Cytogenetic Map17q12.3UniSTS
BF400671  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01775,444,184 - 75,444,303NCBIRnor6.0
Rnor_5.01777,101,286 - 77,101,405UniSTSRnor5.0
RGSC_v3.41782,812,189 - 82,812,308UniSTSRGSC3.4
Celera1770,972,650 - 70,972,769UniSTS
RH 3.4 Map17717.4UniSTS
Cytogenetic Map17q12.3UniSTS
AU048037  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01775,307,132 - 75,307,294NCBIRnor6.0
Rnor_6.01775,505,694 - 75,505,855NCBIRnor6.0
Rnor_5.01777,162,796 - 77,162,957UniSTSRnor5.0
Rnor_5.01776,962,174 - 76,962,336UniSTSRnor5.0
RGSC_v3.41782,875,780 - 82,875,942UniSTSRGSC3.4
Celera1771,033,989 - 71,034,150UniSTS
Cytogenetic Map17q12.3UniSTS
RH137713  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01775,648,508 - 75,648,639NCBIRnor6.0
Rnor_5.01777,305,610 - 77,305,741UniSTSRnor5.0
RGSC_v3.41783,018,465 - 83,018,596UniSTSRGSC3.4
Celera1771,176,579 - 71,176,710UniSTS
RH 3.4 Map17713.7UniSTS
Cytogenetic Map17q12.3UniSTS
BF390310  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01775,634,177 - 75,634,385NCBIRnor6.0
Rnor_5.01777,291,279 - 77,291,487UniSTSRnor5.0
RGSC_v3.41783,004,134 - 83,004,342UniSTSRGSC3.4
Celera1771,162,254 - 71,162,462UniSTS
RH 3.4 Map17711.0UniSTS
Cytogenetic Map17q12.3UniSTS
BF390754  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01775,442,184 - 75,442,383NCBIRnor6.0
Celera1770,970,649 - 70,970,848UniSTS
RH 3.4 Map17717.2UniSTS
Cytogenetic Map17q12.3UniSTS
AI008532  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01775,443,717 - 75,443,898NCBIRnor6.0
Rnor_5.01777,100,819 - 77,101,000UniSTSRnor5.0
RGSC_v3.41782,811,722 - 82,811,903UniSTSRGSC3.4
Celera1770,972,183 - 70,972,364UniSTS
RH 3.4 Map17716.7UniSTS
Cytogenetic Map17q12.3UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9590107Sffal7Serum free fatty acids level QTL 74.810.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)173097522875975228Rat
8552928Pigfal9Plasma insulin-like growth factor 1 level QTL 99blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)173097522875975228Rat
2324621Coatc5Coat color QTL 5coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)173205588277922655Rat
724549Niddm56Non-insulin dependent diabetes mellitus QTL 560.03blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)173330362778303627Rat
1354663Bvd5Brain ventricular dilatation QTL 53.510.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)173330362785321557Rat
1300148Bp192Blood pressure QTL 1923.47arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)173628324577922655Rat
2317054Aia12Adjuvant induced arthritis QTL 124.24joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)174117605786176057Rat
2317060Aia26Adjuvant induced arthritis QTL 263.22joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)174117605786176057Rat
2301412Kidm40Kidney mass QTL 400.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)174173108086731080Rat
1598871Memor5Memory QTL 55.3exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)174254187285446768Rat
1358295Aocep1Aortic cell protein QTL 16.10.00000071thoracic aorta cellular protein amount (VT:0010598)aortic cell percentage174435615789356157Rat
7411575Bw140Body weight QTL 14030.20.001body mass (VT:0001259)body weight gain (CMO:0000420)175241095790843779Rat
8694181Bw151Body weight QTL 1514.360.001body mass (VT:0001259)body weight gain (CMO:0000420)175241095790843779Rat
4889894Eae33Experimental allergic encephalomyelitis QTL 335.20.0001nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)175347518090690466Rat
2317038Ginf3Gastrointestinal inflammation QTL 32.890.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)175387148890843779Rat
2303580Gluco49Glucose level QTL 492blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)175399194790843779Rat
1354588Bvd4Brain ventricular dilatation QTL 45.310.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)175622429686731080Rat
2302365Gluco40Glucose level QTL 404.79blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)176219582286194199Rat
7488963Bp369Blood pressure QTL 3690.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)176549735982019219Rat
1300131Bp193Blood pressure QTL 1933.3arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)176700421277922655Rat
7411577Bw141Body weight QTL 1410.001body mass (VT:0001259)body weight gain (CMO:0000420)176751265790843779Rat
631502Cm26Cardiac mass QTL 263.71heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)176933327285183543Rat
1300129Rf25Renal function QTL 253.03blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)177485263085183543Rat

miRNA Target Status

Confirmed Target Of
miRNA GeneMature miRNAMethod NameResult TypeData TypeSupport TypePMID
Mir144rno-miR-144-3pMirtarbaseexternal_infoReporter assay;Western blot;qRT-PCRFunctional MTI20708014
Mir451arno-miR-451-5pMirtarbaseexternal_infoReporter assay;Western blot;qRT-PCRFunctional MTI20708014

Predicted Target Of
Summary Value
Count of predictions:54
Count of miRNA genes:41
Interacting mature miRNAs:52
Transcripts:ENSRNOT00000023436
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2 42 22 6 19 6 8 10 74 20 39 11 8
Low 1 1 35 35 35 1 15 2
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001083586 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_017197 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008771862 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008771863 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008771864 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600501 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600502 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600503 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600504 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600505 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600506 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600507 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095581 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095582 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095583 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095584 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095585 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095586 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095587 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095588 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095589 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095590 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095591 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095592 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095593 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095594 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095595 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095596 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095597 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095598 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095599 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095600 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095601 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095602 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095603 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095604 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095605 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095606 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095607 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF090695 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF169013 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ010351 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ010386 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC129096 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473990 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225128 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225689 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226457 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228073 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230320 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232066 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233495 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234590 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234656 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000294 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000023436   ⟹   ENSRNOP00000023436
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1775,352,389 - 75,654,951 (+)Ensembl
RefSeq Acc Id: NM_001083586   ⟹   NP_001077055
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,409,610 - 71,724,658 (+)NCBI
Rnor_6.01775,259,269 - 75,654,950 (+)NCBI
Rnor_5.01776,413,318 - 77,317,256 (+)NCBI
RGSC_v3.41782,708,354 - 83,025,139 (+)RGD
Celera1770,868,671 - 71,183,021 (+)NCBI
Sequence:
RefSeq Acc Id: NM_017197   ⟹   NP_058893
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,409,610 - 71,724,890 (+)NCBI
Rnor_6.01775,259,269 - 75,655,182 (+)NCBI
Rnor_5.01776,413,318 - 77,317,256 (+)NCBI
RGSC_v3.41782,708,354 - 83,025,139 (+)RGD
Celera1770,868,671 - 71,183,253 (+)RGD
Sequence:
RefSeq Acc Id: XM_008771862   ⟹   XP_008770084
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,462,650 - 71,729,072 (+)NCBI
Rnor_6.01775,392,431 - 75,660,154 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008771863   ⟹   XP_008770085
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,462,650 - 71,729,072 (+)NCBI
Rnor_6.01775,392,431 - 75,660,154 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008771864   ⟹   XP_008770086
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,462,650 - 71,729,072 (+)NCBI
Rnor_6.01775,392,431 - 75,660,154 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600501   ⟹   XP_017455990
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01775,352,362 - 75,660,154 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600502   ⟹   XP_017455991
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01775,392,431 - 75,660,154 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600503   ⟹   XP_017455992
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01775,392,431 - 75,660,154 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600504   ⟹   XP_017455993
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01775,392,431 - 75,660,154 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600505   ⟹   XP_017455994
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01775,352,340 - 75,660,154 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600506   ⟹   XP_017455995
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01775,352,340 - 75,660,154 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600507   ⟹   XP_017455996
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01775,352,340 - 75,660,154 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039095581   ⟹   XP_038951509
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,462,650 - 71,729,072 (+)NCBI
RefSeq Acc Id: XM_039095582   ⟹   XP_038951510
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,462,650 - 71,728,618 (+)NCBI
RefSeq Acc Id: XM_039095583   ⟹   XP_038951511
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,462,650 - 71,728,618 (+)NCBI
RefSeq Acc Id: XM_039095584   ⟹   XP_038951512
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,462,650 - 71,728,618 (+)NCBI
RefSeq Acc Id: XM_039095585   ⟹   XP_038951513
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21770,904,462 - 71,728,618 (+)NCBI
RefSeq Acc Id: XM_039095586   ⟹   XP_038951514
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,420,937 - 71,728,618 (+)NCBI
RefSeq Acc Id: XM_039095587   ⟹   XP_038951515
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,462,650 - 71,728,618 (+)NCBI
RefSeq Acc Id: XM_039095588   ⟹   XP_038951516
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,409,732 - 71,728,618 (+)NCBI
RefSeq Acc Id: XM_039095589   ⟹   XP_038951517
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,462,650 - 71,728,618 (+)NCBI
RefSeq Acc Id: XM_039095590   ⟹   XP_038951518
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,409,733 - 71,728,618 (+)NCBI
RefSeq Acc Id: XM_039095591   ⟹   XP_038951519
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,210,882 - 71,728,618 (+)NCBI
RefSeq Acc Id: XM_039095592   ⟹   XP_038951520
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,462,650 - 71,728,618 (+)NCBI
RefSeq Acc Id: XM_039095593   ⟹   XP_038951521
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,420,938 - 71,728,618 (+)NCBI
RefSeq Acc Id: XM_039095594   ⟹   XP_038951522
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,420,941 - 71,728,618 (+)NCBI
RefSeq Acc Id: XM_039095595   ⟹   XP_038951523
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,420,943 - 71,728,618 (+)NCBI
RefSeq Acc Id: XM_039095596   ⟹   XP_038951524
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,409,994 - 71,728,618 (+)NCBI
RefSeq Acc Id: XM_039095597   ⟹   XP_038951525
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,227,280 - 71,728,618 (+)NCBI
RefSeq Acc Id: XM_039095598   ⟹   XP_038951526
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,490,595 - 71,728,618 (+)NCBI
RefSeq Acc Id: XM_039095599   ⟹   XP_038951527
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,423,185 - 71,728,618 (+)NCBI
RefSeq Acc Id: XM_039095600   ⟹   XP_038951528
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,420,937 - 71,728,618 (+)NCBI
RefSeq Acc Id: XM_039095601   ⟹   XP_038951529
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,409,538 - 71,728,618 (+)NCBI
RefSeq Acc Id: XM_039095602   ⟹   XP_038951530
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,423,189 - 71,728,618 (+)NCBI
RefSeq Acc Id: XM_039095603   ⟹   XP_038951531
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,409,536 - 71,728,618 (+)NCBI
RefSeq Acc Id: XM_039095604   ⟹   XP_038951532
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,409,729 - 71,728,618 (+)NCBI
RefSeq Acc Id: XM_039095605   ⟹   XP_038951533
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,420,928 - 71,728,618 (+)NCBI
RefSeq Acc Id: XM_039095606   ⟹   XP_038951534
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,210,882 - 71,728,618 (+)NCBI
RefSeq Acc Id: XM_039095607   ⟹   XP_038951535
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21771,658,654 - 71,728,618 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001077055 (Get FASTA)   NCBI Sequence Viewer  
  NP_058893 (Get FASTA)   NCBI Sequence Viewer  
  XP_008770084 (Get FASTA)   NCBI Sequence Viewer  
  XP_008770085 (Get FASTA)   NCBI Sequence Viewer  
  XP_008770086 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951509 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951510 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951511 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951512 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951513 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951514 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951515 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951516 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951517 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951518 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951519 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951520 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951521 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951522 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951523 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951524 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951525 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951526 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951527 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951528 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951529 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951530 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951531 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951532 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951533 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951534 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951535 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAD13762 (Get FASTA)   NCBI Sequence Viewer  
  AAF89096 (Get FASTA)   NCBI Sequence Viewer  
  AAI29097 (Get FASTA)   NCBI Sequence Viewer  
  CAA09102 (Get FASTA)   NCBI Sequence Viewer  
  CAA09103 (Get FASTA)   NCBI Sequence Viewer  
  EDL78641 (Get FASTA)   NCBI Sequence Viewer  
  EDL78642 (Get FASTA)   NCBI Sequence Viewer  
  Q792H5 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_058893   ⟸   NM_017197
- Peptide Label: isoform 1
- UniProtKB: Q792H5 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001077055   ⟸   NM_001083586
- Peptide Label: isoform 2
- Sequence:
RefSeq Acc Id: XP_008770084   ⟸   XM_008771862
- Peptide Label: isoform X2
- UniProtKB: Q792H5 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008770085   ⟸   XM_008771863
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008770086   ⟸   XM_008771864
- Peptide Label: isoform X4
- UniProtKB: Q792H5 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017455994   ⟸   XM_017600505
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_017455995   ⟸   XM_017600506
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_017455996   ⟸   XM_017600507
- Peptide Label: isoform X10
- Sequence:
RefSeq Acc Id: XP_017455990   ⟸   XM_017600501
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017455991   ⟸   XM_017600502
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017455992   ⟸   XM_017600503
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_017455993   ⟸   XM_017600504
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: ENSRNOP00000023436   ⟸   ENSRNOT00000023436
RefSeq Acc Id: XP_038951513   ⟸   XM_039095585
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038951519   ⟸   XM_039095591
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038951534   ⟸   XM_039095606
- Peptide Label: isoform X16
RefSeq Acc Id: XP_038951525   ⟸   XM_039095597
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038951531   ⟸   XM_039095603
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038951529   ⟸   XM_039095601
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038951532   ⟸   XM_039095604
- Peptide Label: isoform X15
RefSeq Acc Id: XP_038951516   ⟸   XM_039095588
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038951518   ⟸   XM_039095590
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038951524   ⟸   XM_039095596
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038951533   ⟸   XM_039095605
- Peptide Label: isoform X16
RefSeq Acc Id: XP_038951528   ⟸   XM_039095600
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038951514   ⟸   XM_039095586
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038951521   ⟸   XM_039095593
- Peptide Label: isoform X12
RefSeq Acc Id: XP_038951522   ⟸   XM_039095594
- Peptide Label: isoform X13
RefSeq Acc Id: XP_038951523   ⟸   XM_039095595
- Peptide Label: isoform X14
RefSeq Acc Id: XP_038951527   ⟸   XM_039095599
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038951530   ⟸   XM_039095602
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038951509   ⟸   XM_039095581
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038951515   ⟸   XM_039095587
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038951511   ⟸   XM_039095583
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038951517   ⟸   XM_039095589
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038951510   ⟸   XM_039095582
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038951512   ⟸   XM_039095584
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038951520   ⟸   XM_039095592
- Peptide Label: isoform X11
RefSeq Acc Id: XP_038951526   ⟸   XM_039095598
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038951535   ⟸   XM_039095607
- Peptide Label: isoform X17
Protein Domains
RRM

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (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 (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/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 (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)
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
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
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/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
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 (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
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
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
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
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
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 (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
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
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 (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 (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
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 (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 (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 (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
Damaging Variants


Assembly: Rnor_6.0
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
17 75640966 75640967 C G snv WKY/NCrl (RGD)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:68347 AgrOrtholog
Ensembl Genes ENSRNOG00000023661 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000023436 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000023436 UniProtKB/TrEMBL
Gene3D-CATH 3.30.70.330 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:8362847 IMAGE-MGC_LOAD
InterPro CELF1/2_RRM1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CELF1/2_RRM2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CELF1/2_RRM3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Hud_Sxl_RNA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nucleotide-bd_a/b_plait_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RBD_domain_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RRM_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:29428 UniProtKB/Swiss-Prot
MGC_CLONE MGC:156660 IMAGE-MGC_LOAD
NCBI Gene 29428 ENTREZGENE
Pfam RRM_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Celf2 PhenoGen
PRINTS HUDSXLRNA 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 CELF2_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Z4YNP1_RAT UniProtKB/TrEMBL
UniProt Secondary A1L1J5 UniProtKB/Swiss-Prot
  O88756 UniProtKB/Swiss-Prot
  Q78ZF0 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-08-02 Celf2  CUGBP, Elav-like family member 2  Cugbp2  CUG triplet repeat, RNA binding protein 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Cugbp2  CUG triplet repeat,RNA-binding protein 2       Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization localized to the nucleus 632538