Rbl2 (RB transcriptional corepressor like 2) - Rat Genome Database

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Gene: Rbl2 (RB transcriptional corepressor like 2) Rattus norvegicus
Analyze
Symbol: Rbl2
Name: RB transcriptional corepressor like 2
RGD ID: 3541
Description: Predicted to enable RNA polymerase II transcription regulatory region sequence-specific DNA binding activity and promoter-specific chromatin binding activity. Predicted to be involved in cell differentiation; negative regulation of G1/S transition of mitotic cell cycle; and regulation of lipid kinase activity. Predicted to act upstream of or within negative regulation of gene expression. Located in chromatin. Orthologous to human RBL2 (RB transcriptional corepressor like 2); PARTICIPATES IN G1/S transition pathway; cell cycle pathway, mitotic; transforming growth factor-beta superfamily mediated signaling pathway; INTERACTS WITH (+)-schisandrin B; 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: 130 kDa retinoblastoma-associated protein; P130; PPAR-alpha-interacting complex protein 128; PRB2; PRIC128; Rb2; RBR-2; retinoblastoma-like 2; retinoblastoma-like 2 (p130); retinoblastoma-like protein 2; Retinoblastoma-related; Retinoblastoma-related gene; retinoblastoma-related protein 2
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
mRatBN7.21915,876,852 - 15,923,632 (-)NCBI
Rnor_6.0 Ensembl1917,300,089 - 17,346,808 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01917,300,088 - 17,346,865 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01928,364,200 - 28,410,959 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41917,045,131 - 17,092,597 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11917,049,956 - 17,097,423 (-)NCBI
Celera1915,782,149 - 15,828,852 (-)NCBICelera
Cytogenetic Map19p11NCBI
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
(+)-schisandrin B  (EXP)
(S)-nicotine  (ISO)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxynon-2-enal  (ISO)
4-hydroxyphenyl retinamide  (ISO)
aflatoxin B2  (ISO)
all-trans-retinoic acid  (ISO)
amiodarone  (EXP)
amitriptyline  (EXP)
ammonium chloride  (EXP)
aristolochic acid  (ISO)
atrazine  (ISO)
avobenzone  (ISO)
benzo[a]pyrene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
calcitriol  (ISO)
calmidazolium  (ISO)
calyculin a  (ISO)
camptothecin  (ISO)
carbon nanotube  (ISO)
cisplatin  (ISO)
clomipramine  (EXP)
cobalt dichloride  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
cyclosporin A  (ISO)
diazinon  (EXP)
dieldrin  (EXP)
dimercaprol  (ISO)
dioxygen  (ISO)
doxorubicin  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
flavonoids  (EXP)
flutamide  (EXP)
formaldehyde  (ISO)
genistein  (EXP)
gentamycin  (EXP)
glafenine  (EXP)
hydrogen peroxide  (ISO)
imipramine  (EXP)
isoprenaline  (ISO)
ketoconazole  (EXP)
lamivudine  (ISO)
lead nitrate  (ISO)
leflunomide  (ISO)
lidocaine  (ISO)
lipopolysaccharide  (ISO)
metacetamol  (ISO)
methapyrilene  (EXP)
methyl methanesulfonate  (ISO)
N-nitrosodiethylamine  (ISO)
N-nitrosodimethylamine  (EXP)
nicotine  (ISO)
O-methyleugenol  (EXP)
okadaic acid  (ISO)
ozone  (EXP)
p-menthan-3-ol  (ISO)
palbociclib  (ISO)
paracetamol  (ISO)
perfluorooctanoic acid  (EXP)
pirinixic acid  (EXP)
potassium chromate  (ISO)
procymidone  (EXP)
promethazine  (EXP)
propiconazole  (ISO)
prostaglandin F2alpha  (EXP)
riddelliine  (ISO)
ritonavir  (ISO)
silicon dioxide  (ISO)
silver(1+) nitrate  (ISO)
sirolimus  (ISO)
sodium arsenite  (ISO)
sunitinib  (ISO)
tamoxifen  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone enanthate  (ISO)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
trichloroethene  (EXP)
troglitazone  (ISO)
urethane  (ISO)
zidovudine  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
chromatin  (IBA,IDA)
chromosome  (IEA,ISO)
cytosol  (IEA,ISO)
nucleolus  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (ISO)
transcription regulator complex  (IBA,IEA,ISO)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:9697699   PMID:10082561   PMID:12189208   PMID:12477932   PMID:15174090   PMID:15459751   PMID:15769944   PMID:16123778   PMID:16286473   PMID:16513252   PMID:18818403   PMID:19056867  
PMID:19099372   PMID:25100735  


Genomics

Comparative Map Data
Rbl2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21915,876,852 - 15,923,632 (-)NCBI
Rnor_6.0 Ensembl1917,300,089 - 17,346,808 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01917,300,088 - 17,346,865 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01928,364,200 - 28,410,959 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41917,045,131 - 17,092,597 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11917,049,956 - 17,097,423 (-)NCBI
Celera1915,782,149 - 15,828,852 (-)NCBICelera
Cytogenetic Map19p11NCBI
RBL2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1653,433,977 - 53,491,648 (+)EnsemblGRCh38hg38GRCh38
GRCh381653,434,471 - 53,491,648 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371653,468,383 - 53,525,560 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361652,025,901 - 52,083,061 (+)NCBINCBI36hg18NCBI36
Build 341652,025,900 - 52,083,060NCBI
Celera1637,983,164 - 38,040,371 (+)NCBI
Cytogenetic Map16q12.2NCBI
HuRef1639,355,821 - 39,413,031 (+)NCBIHuRef
CHM1_11654,875,514 - 54,932,695 (+)NCBICHM1_1
Rbl2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39891,796,685 - 91,850,472 (+)NCBIGRCm39mm39
GRCm39 Ensembl891,796,685 - 91,850,472 (+)Ensembl
GRCm38891,070,057 - 91,123,844 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl891,070,057 - 91,123,844 (+)EnsemblGRCm38mm10GRCm38
MGSCv37893,593,993 - 93,647,743 (+)NCBIGRCm37mm9NCBIm37
MGSCv36890,825,998 - 90,879,586 (+)NCBImm8
MGSCv36893,960,214 - 94,013,949 (+)NCBImm8
Celera895,389,485 - 95,438,924 (+)NCBICelera
Cytogenetic Map8C4NCBI
cM Map844.25NCBI
Rbl2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543311,185,077 - 11,237,645 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495543311,185,726 - 11,237,645 (+)NCBIChiLan1.0ChiLan1.0
RBL2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11652,759,290 - 52,815,685 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1652,759,290 - 52,816,175 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01633,674,751 - 33,731,308 (+)NCBIMhudiblu_PPA_v0panPan3
RBL2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1262,263,974 - 62,315,371 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl262,265,293 - 62,315,425 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha258,897,038 - 58,948,437 (-)NCBI
ROS_Cfam_1.0262,805,721 - 62,857,135 (-)NCBI
UMICH_Zoey_3.1259,629,354 - 59,680,520 (-)NCBI
UNSW_CanFamBas_1.0260,649,922 - 60,701,093 (-)NCBI
UU_Cfam_GSD_1.0261,532,307 - 61,583,705 (-)NCBI
Rbl2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934953,434,852 - 53,501,832 (-)NCBI
SpeTri2.0NW_0049364756,087,055 - 6,140,012 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RBL2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl631,748,739 - 31,802,022 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1631,757,718 - 31,802,047 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
RBL2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1539,225,797 - 39,283,550 (+)NCBI
ChlSab1.1 Ensembl539,225,844 - 39,282,190 (+)Ensembl
Vero_WHO_p1.0NW_02366604737,097,718 - 37,155,647 (-)NCBI
Rbl2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247573,295,471 - 3,351,539 (-)NCBI

Position Markers
BE112852  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21915,882,368 - 15,882,536 (+)MAPPER
Rnor_6.01917,305,605 - 17,305,772NCBIRnor6.0
Rnor_5.01928,369,717 - 28,369,884UniSTSRnor5.0
RGSC_v3.41917,050,647 - 17,050,814UniSTSRGSC3.4
Celera1915,787,666 - 15,787,833UniSTS
Cytogenetic Map19p11UniSTS
RH137786  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21915,877,707 - 15,877,910 (+)MAPPER
Rnor_6.01917,300,944 - 17,301,146NCBIRnor6.0
Rnor_5.01928,365,056 - 28,365,258UniSTSRnor5.0
RGSC_v3.41917,045,986 - 17,046,188UniSTSRGSC3.4
Celera1915,783,004 - 15,783,206UniSTS
Cytogenetic Map19p11UniSTS
RH132847  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21915,886,368 - 15,886,551 (+)MAPPER
Rnor_6.01917,309,605 - 17,309,787NCBIRnor6.0
Rnor_5.01928,373,717 - 28,373,899UniSTSRnor5.0
RGSC_v3.41917,054,647 - 17,054,829UniSTSRGSC3.4
Celera1915,791,666 - 15,791,848UniSTS
Cytogenetic Map19p11UniSTS
RH144576  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21915,880,747 - 15,880,897 (+)MAPPER
Rnor_6.01917,303,984 - 17,304,133NCBIRnor6.0
Rnor_5.01928,368,096 - 28,368,245UniSTSRnor5.0
RGSC_v3.41917,049,026 - 17,049,175UniSTSRGSC3.4
Celera1915,786,045 - 15,786,194UniSTS
Cytogenetic Map19p11UniSTS
BE120467  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21915,894,112 - 15,894,262 (+)MAPPER
Rnor_6.01917,317,349 - 17,317,498NCBIRnor6.0
Rnor_5.01928,381,461 - 28,381,610UniSTSRnor5.0
RGSC_v3.41917,062,391 - 17,062,540UniSTSRGSC3.4
Celera1915,799,410 - 15,799,559UniSTS
Cytogenetic Map19p11UniSTS
RH136737  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21915,906,944 - 15,907,064 (+)MAPPER
Rnor_6.01917,330,181 - 17,330,300NCBIRnor6.0
Rnor_5.01928,394,293 - 28,394,412UniSTSRnor5.0
RGSC_v3.41917,075,970 - 17,076,089UniSTSRGSC3.4
Celera1915,812,225 - 15,812,344UniSTS
Cytogenetic Map19p11UniSTS
RH142012  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21915,876,718 - 15,876,928 (+)MAPPER
Rnor_6.01917,299,955 - 17,300,164NCBIRnor6.0
Rnor_5.01928,364,067 - 28,364,276UniSTSRnor5.0
RGSC_v3.41917,044,997 - 17,045,206UniSTSRGSC3.4
Celera1915,782,015 - 15,782,224UniSTS
Cytogenetic Map19p11UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
7411590Foco7Food consumption QTL 76.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)19124933090Rat
10054132Srcrt9Stress Responsive Cort QTL 92.870.0017blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19127635288Rat
631678Cm9Cardiac mass QTL 94.270.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)19129558305Rat
631681Cm12Cardiac mass QTL 123.330.00053heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)19129558305Rat
1549847Bss8Bone structure and strength QTL 84lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)19132379055Rat
9590298Uminl5Urine mineral level QTL 53.590.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)19138221845Rat
9590250Scort11Serum corticosterone level QTL 1123.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19138221845Rat
9590090Insglur8Insulin/glucose ratio QTL 810.810.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)19138221845Rat
8552935Pigfal10Plasma insulin-like growth factor 1 level QTL 105.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)19138221845Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)19104464846044648Rat
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)19195770746957707Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19243296347217667Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19243296362275575Rat
9589102Slep13Serum leptin concentration QTL 134.630.001blood leptin amount (VT:0005667)plasma leptin level (CMO:0000781)19370183548701835Rat
8694186Bw152Body weight QTL 1523.340.001body mass (VT:0001259)body weight gain (CMO:0000420)19370183548701835Rat
724565Tcas5Tongue tumor susceptibility QTL 510.04tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)19500757143907843Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19650676160220581Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19807254547318201Rat
631840Niddm38Non-insulin dependent diabetes mellitus QTL 383.86blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)191073992926201726Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191130392747879277Rat
61407Scl12Serum cholesterol level QTL 120.001blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)191529452433991703Rat
1558656Prcs1Prostate cancer susceptibility QTL 15prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)191593952838798459Rat
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)191702800352538299Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:547
Count of miRNA genes:248
Interacting mature miRNAs:303
Transcripts:ENSRNOT00000017361
Prediction methods:Microtar, Miranda, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 24 45 29 19 29 8 10 66 31 33 11 8
Low 19 12 12 12 1 8 4 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000017361   ⟹   ENSRNOP00000017361
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1917,300,089 - 17,346,808 (-)Ensembl
RefSeq Acc Id: NM_031094   ⟹   NP_112356
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21915,876,853 - 15,923,572 (-)NCBI
Rnor_6.01917,300,089 - 17,346,808 (-)NCBI
Rnor_5.01928,364,200 - 28,410,959 (-)NCBI
RGSC_v3.41917,045,131 - 17,092,597 (-)RGD
Celera1915,782,149 - 15,828,852 (-)RGD
Sequence:
RefSeq Acc Id: XM_006255199   ⟹   XP_006255261
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21915,876,852 - 15,923,630 (-)NCBI
Rnor_6.01917,300,088 - 17,346,863 (-)NCBI
Rnor_5.01928,364,200 - 28,410,959 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006255200   ⟹   XP_006255262
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21915,884,717 - 15,923,632 (-)NCBI
Rnor_6.01917,308,373 - 17,346,865 (-)NCBI
Rnor_5.01928,364,200 - 28,410,959 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006255201   ⟹   XP_006255263
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21915,876,852 - 15,913,285 (-)NCBI
Rnor_6.01917,300,088 - 17,336,071 (-)NCBI
Rnor_5.01928,364,200 - 28,410,959 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_112356   ⟸   NM_031094
- Sequence:
RefSeq Acc Id: XP_006255261   ⟸   XM_006255199
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006255263   ⟸   XM_006255201
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006255262   ⟸   XM_006255200
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000017361   ⟸   ENSRNOT00000017361
Protein Domains
CYCLIN   DUF3452   RB_A   Rb_C

Transcriptome

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

Promoters
RGD ID:13700974
Promoter ID:EPDNEW_R11497
Type:initiation region
Name:Rbl2_1
Description:RB transcriptional corepressor like 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01917,346,845 - 17,346,905EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3541 AgrOrtholog
Ensembl Genes ENSRNOG00000012153 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000017361 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000017361 ENTREZGENE, UniProtKB/TrEMBL
InterPro Cyclin-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cyclin-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RB2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RB_A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RB_B UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RB_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RB_fam UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RB_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:81758 UniProtKB/Swiss-Prot
NCBI Gene 81758 ENTREZGENE
PANTHER PTHR13742 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR13742:SF8 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam DUF3452 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RB_A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RB_B UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Rbl2 PhenoGen
SMART CYCLIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DUF3452 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RB_A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Rb_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47954 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt G3V7P7_RAT UniProtKB/TrEMBL
  O55081 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-06-03 Rbl2  RB transcriptional corepressor like 2  Rbl2  retinoblastoma-like 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2003-04-09 Rbl2  retinoblastoma-like 2  Rb2  Retinoblastoma-related gene  Symbol and Name updated 629477 APPROVED
2002-06-10 Rb2  Retinoblastoma-related gene      Symbol and Name status set to approved 70586 APPROVED