Bcl6 (BCL6, transcription repressor) - Rat Genome Database

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Gene: Bcl6 (BCL6, transcription repressor) Rattus norvegicus
Analyze
Symbol: Bcl6
Name: BCL6, transcription repressor
RGD ID: 1309345
Description: Predicted to have DNA binding activity; DNA-binding transcription repressor activity, RNA polymerase II-specific; and identical protein binding activity. Predicted to be involved in several processes, including hemopoiesis; negative regulation of signal transduction; and regulation of lymphocyte activation. Predicted to colocalize with replication fork. Human ortholog(s) of this gene implicated in B-cell lymphoma and diffuse large B-cell lymphoma. Orthologous to human BCL6 (BCL6 transcription repressor); PARTICIPATES IN interleukin-4 signaling pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: B-cell CLL/lymphoma 6; B-cell leukemia/lymphoma 6; LOC303836
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
mRatBN7.21176,854,090 - 76,877,389 (+)NCBI
Rnor_6.0 Ensembl1180,255,790 - 80,279,075 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01180,255,790 - 80,279,075 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01180,454,014 - 80,477,192 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41179,006,123 - 79,030,555 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11179,063,711 - 79,088,148 (+)NCBI
Celera1175,736,211 - 75,759,558 (+)NCBICelera
Cytogenetic Map11q23NCBI
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
(-)-epigallocatechin 3-gallate  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2-hydroxypropanoic acid  (ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3-methylcholanthrene  (ISO)
4-hydroxynon-2-enal  (ISO)
4-phenylbutyric acid  (ISO)
5-aza-2'-deoxycytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
7,12-dimethyltetraphene  (ISO)
acrylamide  (EXP)
aflatoxin B1  (ISO)
amphetamine  (EXP)
antirheumatic drug  (ISO)
aripiprazole  (ISO)
aristolochic acid  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
boron nitride  (ISO)
bortezomib  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
carbon nanotube  (ISO)
ciglitazone  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
clobetasol  (ISO)
cobalt dichloride  (ISO)
copper(II) sulfate  (ISO)
crocidolite asbestos  (ISO)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
cypermethrin  (ISO)
deoxynivalenol  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
diazinon  (EXP)
dibenz[a,h]anthracene  (ISO)
dichloromethane  (ISO)
diclofenac  (ISO)
dicrotophos  (ISO)
dieldrin  (EXP)
diethylstilbestrol  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
ethanol  (ISO)
ethylbenzene  (ISO)
fluoranthene  (ISO)
formaldehyde  (ISO)
furan  (EXP)
gamma-hexachlorocyclohexane  (ISO)
gemcitabine  (ISO)
genistein  (ISO)
gentamycin  (EXP)
geraniol  (ISO)
GW 501516  (ISO)
hydrazine  (ISO)
hydrogen peroxide  (ISO)
Indeno[1,2,3-cd]pyrene  (ISO)
indole-3-methanol  (EXP)
leflunomide  (ISO)
lipopolysaccharide  (ISO)
menadione  (ISO)
metformin  (EXP)
methamphetamine  (EXP)
methapyrilene  (EXP)
methylmercury chloride  (ISO)
mono(2-ethylhexyl) phthalate  (EXP)
N,N-diethyl-m-toluamide  (EXP)
N-acetyl-L-cysteine  (EXP)
N-nitrosodiethylamine  (EXP)
nefazodone  (EXP)
nickel dichloride  (EXP)
o-xylene  (ISO)
ochratoxin A  (EXP)
orphenadrine  (EXP)
oxaliplatin  (EXP)
ozone  (ISO)
p-chloromercuribenzoic acid  (ISO)
paclitaxel  (ISO)
paracetamol  (ISO)
permethrin  (EXP)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
Pyridostigmine bromide  (EXP)
rac-lactic acid  (ISO)
raloxifene  (ISO)
resveratrol  (ISO)
rotenone  (EXP)
SB 431542  (ISO)
SCH 23390  (EXP)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (EXP,ISO)
sodium stibogluconate  (ISO)
styrene  (ISO)
sulforaphane  (ISO)
sunitinib  (ISO)
tamoxifen  (ISO)
tetrachloromethane  (ISO)
titanium dioxide  (ISO)
toluene  (ISO)
topotecan  (EXP)
trichloroethene  (EXP,ISO)
trichostatin A  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
tunicamycin  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vanadyl sulfate  (ISO)
vinclozolin  (EXP)
vitamin E  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
actin cytoskeleton organization  (ISO)
B cell differentiation  (ISO)
biological_process  (ND)
cell morphogenesis  (ISO)
cellular response to DNA damage stimulus  (ISO)
erythrocyte development  (ISO)
germinal center formation  (ISO)
negative regulation of apoptotic process  (ISO)
negative regulation of cell differentiation  (ISO)
negative regulation of cell growth  (ISO)
negative regulation of cell population proliferation  (ISO)
negative regulation of cell-matrix adhesion  (ISO)
negative regulation of cellular senescence  (ISO)
negative regulation of isotype switching to IgE isotypes  (ISO)
negative regulation of mast cell cytokine production  (ISO)
negative regulation of Notch signaling pathway  (ISO)
negative regulation of Rho protein signal transduction  (ISO)
negative regulation of T-helper 2 cell differentiation  (ISO)
negative regulation of transcription by RNA polymerase II  (IBA,ISO)
negative regulation of transcription, DNA-templated  (ISO)
negative regulation of type 2 immune response  (ISO)
positive regulation of apoptotic process  (ISO)
positive regulation of B cell proliferation  (ISO)
positive regulation of cellular component movement  (ISO)
positive regulation of histone deacetylation  (ISO)
positive regulation of neuron differentiation  (ISO)
positive regulation of regulatory T cell differentiation  (ISO)
protein localization  (ISO)
regulation of cell differentiation  (IBA)
regulation of cell population proliferation  (IBA,ISO)
regulation of cytokine production  (IBA)
regulation of GTPase activity  (ISO)
regulation of immune system process  (IBA)
regulation of inflammatory response  (IBA,ISO)
regulation of memory T cell differentiation  (ISO)
regulation of transcription by RNA polymerase II  (IBA,ISO)
Rho protein signal transduction  (ISO)
spermatogenesis  (ISO)
type 2 immune response  (IBA,ISO)

Cellular Component
cellular_component  (ND)
Golgi apparatus  (IEA,ISO)
nucleolus  (IEA,ISO)
nucleoplasm  (IBA,ISO)
nucleus  (ISO)
replication fork  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:7795255   PMID:9110977   PMID:9171827   PMID:9236196   PMID:9632807   PMID:9927203   PMID:10438949   PMID:10490661   PMID:10490843   PMID:10898795   PMID:11092811   PMID:11929873  
PMID:12097386   PMID:12354385   PMID:12477932   PMID:12594267   PMID:12817026   PMID:14647274   PMID:15240675   PMID:15240705   PMID:15507530   PMID:15577913   PMID:15611242   PMID:15659391  
PMID:15661395   PMID:15860730   PMID:15950739   PMID:17125145   PMID:17908795   PMID:19797429   PMID:20630860   PMID:21190961   PMID:22387553   PMID:23160044   PMID:23209284   PMID:24863065  
PMID:25416956   PMID:29972264   PMID:30805081   PMID:31346987  


Genomics

Comparative Map Data
Bcl6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21176,854,090 - 76,877,389 (+)NCBI
Rnor_6.0 Ensembl1180,255,790 - 80,279,075 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01180,255,790 - 80,279,075 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01180,454,014 - 80,477,192 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41179,006,123 - 79,030,555 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11179,063,711 - 79,088,148 (+)NCBI
Celera1175,736,211 - 75,759,558 (+)NCBICelera
Cytogenetic Map11q23NCBI
BCL6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl3187,721,377 - 187,745,725 (-)EnsemblGRCh38hg38GRCh38
GRCh383187,721,377 - 187,745,472 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh373187,439,165 - 187,463,256 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363188,921,859 - 188,946,169 (-)NCBINCBI36hg18NCBI36
Build 343188,921,866 - 188,936,950NCBI
Celera3185,870,167 - 185,894,514 (-)NCBI
Cytogenetic Map3q27.3NCBI
HuRef3184,843,368 - 184,867,718 (-)NCBIHuRef
CHM1_13187,402,407 - 187,426,738 (-)NCBICHM1_1
Bcl6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391623,783,800 - 23,807,623 (-)NCBIGRCm39mm39
GRCm39 Ensembl1623,783,802 - 23,807,602 (-)Ensembl
GRCm381623,965,050 - 23,988,866 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1623,965,052 - 23,988,852 (-)EnsemblGRCm38mm10GRCm38
MGSCv371623,965,138 - 23,988,698 (-)NCBIGRCm37mm9NCBIm37
MGSCv361623,880,401 - 23,903,961 (-)NCBImm8
Celera1624,514,447 - 24,538,188 (-)NCBICelera
Cytogenetic Map16B1NCBI
cM Map1615.26NCBI
Bcl6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542019,998,742 - 20,022,259 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542019,998,960 - 20,021,200 (+)NCBIChiLan1.0ChiLan1.0
BCL6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.13193,308,296 - 193,332,452 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3193,308,296 - 193,332,124 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v03184,748,135 - 184,772,375 (-)NCBIMhudiblu_PPA_v0panPan3
BCL6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13420,112,302 - 20,135,705 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3420,113,322 - 20,124,704 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3424,206,192 - 24,217,557 (-)NCBI
ROS_Cfam_1.03420,032,420 - 20,123,667 (-)NCBI
UMICH_Zoey_3.13420,061,949 - 20,073,314 (-)NCBI
UNSW_CanFamBas_1.03420,055,728 - 20,067,098 (-)NCBI
UU_Cfam_GSD_1.03420,295,606 - 20,306,970 (-)NCBI
Bcl6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602116,280,077 - 116,303,180 (+)NCBI
SpeTri2.0NW_0049365782,371,976 - 2,395,034 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
BCL6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13125,377,248 - 125,393,330 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113125,377,247 - 125,401,328 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213134,660,904 - 134,685,055 (-)NCBISscrofa10.2Sscrofa10.2susScr3
BCL6
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11581,997,659 - 82,022,059 (-)NCBI
ChlSab1.1 Ensembl1581,998,545 - 82,009,946 (-)Ensembl
Bcl6
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473069,145,035 - 69,167,583 (+)NCBI

Position Markers
U41465  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01180,278,050 - 80,278,135NCBIRnor6.0
Rnor_5.01180,454,954 - 80,455,039UniSTSRnor5.0
RGSC_v3.41179,029,530 - 79,029,615UniSTSRGSC3.4
Celera1175,758,533 - 75,758,618UniSTS
Cytogenetic Map11q23UniSTS
AU047979  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01180,257,779 - 80,258,056NCBIRnor6.0
Rnor_5.01180,474,926 - 80,475,203UniSTSRnor5.0
RGSC_v3.41179,008,112 - 79,008,389UniSTSRGSC3.4
Celera1175,738,201 - 75,738,478UniSTS
Cytogenetic Map11q23UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111901627290463843Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112831466586994795Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)113043533986714631Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)113215552082443118Rat
70180BpQTLcluster10Blood pressure QTL cluster 103.19arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)113590063480900634Rat
1300135Rf19Renal function QTL 193.38blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)114309033886714631Rat
2312566Glom20Glomerulus QTL 203.60.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)114658320986714631Rat
1581565Pur10Proteinuria QTL 100.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114726402386994547Rat
1581572Uae35Urinary albumin excretion QTL 350.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114726402386994547Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)115785881090463843Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)115994302390463843Rat
4889521Gluco62Glucose level QTL 622.820.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)116010984287141948Rat
631506Bp104Blood pressure QTL 1042.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)116265336586714475Rat
70208Niddm22Non-insulin dependent diabetes mellitus QTL 223.61blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)116265336586714483Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)116449467190463843Rat
1549848Bvd6Brain ventricular dilatation QTL 63.10.0001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)116934231986312439Rat
1354593Stl12Serum triglyceride level QTL 123.36blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)116964970890463843Rat
1354656Bvd3Brain ventricular dilatation QTL 33.640.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)117272002986994795Rat

miRNA Target Status

Confirmed Target Of
miRNA GeneMature miRNAMethod NameResult TypeData TypeSupport TypePMID
Mir127rno-miR-127-3pMirtarbaseexternal_infoWestern blotFunctional MTI18942116

Predicted Target Of
Summary Value
Count of predictions:616
Count of miRNA genes:268
Interacting mature miRNAs:342
Transcripts:ENSRNOT00000002522
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 2 13 3 13 3 4 7 29 11 4 10 4
Low 1 43 44 38 6 38 4 4 45 24 37 1 4
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000002522   ⟹   ENSRNOP00000002522
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1180,255,790 - 80,279,075 (+)Ensembl
RefSeq Acc Id: NM_001107084   ⟹   NP_001100554
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21176,854,090 - 76,877,389 (+)NCBI
Rnor_6.01180,255,790 - 80,279,075 (+)NCBI
Rnor_5.01180,454,014 - 80,477,192 (-)NCBI
RGSC_v3.41179,006,123 - 79,030,555 (+)RGD
Celera1175,736,211 - 75,759,558 (+)RGD
Sequence:
RefSeq Acc Id: XM_039088297   ⟹   XP_038944225
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21176,861,543 - 76,876,315 (+)NCBI
RefSeq Acc Id: XM_039088298   ⟹   XP_038944226
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21176,858,631 - 76,876,315 (+)NCBI
RefSeq Acc Id: XM_039088299   ⟹   XP_038944227
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21176,854,192 - 76,876,315 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001100554 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944225 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944226 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944227 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI66425 (Get FASTA)   NCBI Sequence Viewer  
  EDL78099 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001100554   ⟸   NM_001107084
- UniProtKB: B2GUV8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000002522   ⟸   ENSRNOT00000002522
RefSeq Acc Id: XP_038944227   ⟸   XM_039088299
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038944226   ⟸   XM_039088298
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038944225   ⟸   XM_039088297
- Peptide Label: isoform X1
Protein Domains
BTB   C2H2-type

Transcriptome

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

Promoters
RGD ID:13698240
Promoter ID:EPDNEW_R8765
Type:initiation region
Name:Bcl6_1
Description:B-cell CLL/lymphoma 6
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_6.01180,255,872 - 80,255,932EPDNEW

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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309345 AgrOrtholog
Ensembl Genes ENSRNOG00000001843 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000002522 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002522 ENTREZGENE, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7097735 IMAGE-MGC_LOAD
InterPro BTB/POZ-like UniProtKB/TrEMBL
  BTB/POZ_fold UniProtKB/TrEMBL
  Znf_C2H2/integrase_DNA-bd UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/TrEMBL
KEGG Report rno:303836 UniProtKB/TrEMBL
MGC_CLONE MGC:187400 IMAGE-MGC_LOAD
NCBI Gene 303836 ENTREZGENE
Pfam BTB UniProtKB/TrEMBL
  zf-C2H2 UniProtKB/TrEMBL
PhenoGen Bcl6 PhenoGen
PROSITE BTB UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
SMART BTB UniProtKB/TrEMBL
  ZnF_C2H2 UniProtKB/TrEMBL
Superfamily-SCOP BTB/POZ_fold UniProtKB/TrEMBL
  SSF57667 UniProtKB/TrEMBL
UniProt B2GUV8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-11-09 Bcl6  BCL6, transcription repressor  Bcl6  B-cell CLL/lymphoma 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-25 Bcl6  B-cell CLL/lymphoma 6  Bcl6  B-cell leukemia/lymphoma 6   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Bcl6  B-cell leukemia/lymphoma 6   Bcl6_predicted  B-cell leukemia/lymphoma 6 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Bcl6_predicted  B-cell leukemia/lymphoma 6 (predicted)      Symbol and Name status set to approved 70820 APPROVED