Bcl11a (BAF chromatin remodeling complex subunit BCL11A) - Rat Genome Database

Send us a Message



 Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) RatMine GViewer (Genome Viewer) Overgo Probe Designer ACP Haplotyper Genome Scanner VCMap
Aging & Age-Related Disease Cancer Cardiovascular Disease COVID-19 Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models PhenoMiner (Quantitative Phenotypes) Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes GERRC (Gene Editing Rat Resource Center) Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Bcl11a (BAF chromatin remodeling complex subunit BCL11A) Rattus norvegicus
Analyze
Symbol: Bcl11a
Name: BAF chromatin remodeling complex subunit BCL11A
RGD ID: 1309923
Description: Exhibits protein kinase binding activity. Involved in several processes, including cellular response to L-glutamate; negative regulation of branching morphogenesis of a nerve; and negative regulation of dendrite development. Localizes to cytoplasm; nucleus; and postsynaptic density. Human ortholog(s) of this gene implicated in autism spectrum disorder; beta thalassemia; schizophrenia; and sickle cell anemia. Orthologous to human BCL11A (BAF chromatin remodeling complex subunit BCL11A); INTERACTS WITH 1,3-dinitrobenzene; 2-methoxyethanol; amphetamine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: B-cell CLL/lymphoma 11A; B-cell CLL/lymphoma 11A (zinc finger protein); B-cell lymphoma/leukemia 11A; BCL11A, BAF complex component; LOC305589
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
mRatBN7.21498,029,018 - 98,124,181 (+)NCBI
Rnor_6.0 Ensembl14108,826,831 - 108,921,669 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.014108,826,717 - 108,921,197 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.014108,546,630 - 108,641,101 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.414105,002,744 - 105,088,365 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.114105,021,975 - 105,116,487 (+)NCBI
Celera1496,996,223 - 97,081,419 (+)NCBICelera
Cytogenetic Map14q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1,3-dinitrobenzene  (EXP)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-methoxyethanol  (EXP)
2-methylcholine  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
acrylamide  (ISO)
aflatoxin B1  (ISO)
aflatoxin B2  (ISO)
all-trans-retinoic acid  (ISO)
amphetamine  (EXP)
antirheumatic drug  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
belinostat  (ISO)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
buta-1,3-diene  (ISO)
butanal  (ISO)
carbon nanotube  (ISO)
casticin  (ISO)
chloroprene  (ISO)
choline  (ISO)
chrysene  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
dichloroacetic acid  (ISO)
dioxygen  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
elemental selenium  (ISO)
entinostat  (ISO)
ethanol  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
geraniol  (ISO)
hydroquinone  (ISO)
L-methionine  (ISO)
mercury dibromide  (ISO)
methylmercury chloride  (ISO)
nickel atom  (ISO)
nickel sulfate  (ISO)
oxaliplatin  (EXP)
panobinostat  (ISO)
paracetamol  (ISO)
pentanal  (ISO)
phenylmercury acetate  (ISO)
pioglitazone  (ISO)
progesterone  (ISO)
propanal  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
silicon dioxide  (ISO)
sunitinib  (ISO)
tamibarotene  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
Tributyltin oxide  (ISO)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
tunicamycin  (ISO)
valproic acid  (ISO)
vitamin E  (ISO)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IDA)
nuclear body  (ISO)
nucleoplasm  (ISO)
nucleus  (IBA,IDA,ISO)
postsynaptic density  (IDA)

References

References - curated
1. Al-Allawi NA, etal., Genet Test Mol Biomarkers. 2015 May;19(5):242-7. doi: 10.1089/gtmb.2014.0310. Epub 2015 Mar 9.
2. Basak A, etal., J Clin Invest. 2015 Jun;125(6):2363-8. doi: 10.1172/JCI81163. Epub 2015 May 4.
3. Chu NL, etal., Evid Based Complement Alternat Med. 2014;2014:213782. doi: 10.1155/2014/213782. Epub 2014 Dec 10.
4. De Rubeis S, etal., Nature. 2014 Nov 13;515(7526):209-15. doi: 10.1038/nature13772. Epub 2014 Oct 29.
5. Flanagan JM, etal., Br J Haematol. 2012 Apr;157(2):240-8. doi: 10.1111/j.1365-2141.2012.09061.x. Epub 2012 Feb 24.
6. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
7. GOA data from the GO Consortium
8. He Y, etal., J Pediatr Hematol Oncol. 2012 May;34(4):323-4. doi: 10.1097/MPH.0b013e3182370bff.
9. Jiang BY, etal., Mol Cancer. 2013 Jun 12;12:61. doi: 10.1186/1476-4598-12-61.
10. Kuo TY and Hsueh YP, J Neurosci Res. 2007 Jun;85(8):1628-36.
11. Kuo TY, etal., J Neurochem. 2010 Sep 1;114(5):1381-92. doi: 10.1111/j.1471-4159.2010.06852.x. Epub 2010 Jun 8.
12. Kuo TY, etal., J Neurosci Res. 2010 Aug 15;88(11):2364-73. doi: 10.1002/jnr.22407.
13. Kuo TY, etal., Mol Cell Neurosci. 2009 Nov;42(3):195-207. doi: 10.1016/j.mcn.2009.07.006. Epub 2009 Jul 17.
14. Lettre G, etal., Proc Natl Acad Sci U S A. 2008 Aug 19;105(33):11869-74. doi: 10.1073/pnas.0804799105. Epub 2008 Jul 30.
15. MGD data from the GO Consortium
16. Neishabury M, etal., Blood Cells Mol Dis. 2013 Aug;51(2):80-4. doi: 10.1016/j.bcmd.2013.02.007. Epub 2013 Mar 28.
17. RGD automated data pipeline
18. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
19. RGD automated import pipeline for gene-chemical interactions
20. Satterwhite E, etal., Blood. 2001 Dec 1;98(12):3413-20.
21. Xu J, etal., Science. 2011 Nov 18;334(6058):993-6. doi: 10.1126/science.1211053. Epub 2011 Oct 13.
Additional References at PubMed
PMID:10744719   PMID:12477932   PMID:12717432   PMID:18681895   PMID:19153051   PMID:19657335  


Genomics

Comparative Map Data
Bcl11a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21498,029,018 - 98,124,181 (+)NCBI
Rnor_6.0 Ensembl14108,826,831 - 108,921,669 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.014108,826,717 - 108,921,197 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.014108,546,630 - 108,641,101 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.414105,002,744 - 105,088,365 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.114105,021,975 - 105,116,487 (+)NCBI
Celera1496,996,223 - 97,081,419 (+)NCBICelera
Cytogenetic Map14q22NCBI
BCL11A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl260,450,520 - 60,554,467 (-)EnsemblGRCh38hg38GRCh38
GRCh38260,450,520 - 60,553,654 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37260,677,655 - 60,780,789 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36260,531,806 - 60,634,137 (-)NCBINCBI36hg18NCBI36
Build 34260,589,952 - 60,692,284NCBI
Celera260,521,903 - 60,624,215 (-)NCBI
Cytogenetic Map2p16.1NCBI
HuRef260,420,518 - 60,522,477 (-)NCBIHuRef
CHM1_1260,608,322 - 60,710,989 (-)NCBICHM1_1
Bcl11a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391124,026,498 - 24,123,558 (+)NCBIGRCm39mm39
GRCm39 Ensembl1124,028,056 - 24,124,123 (+)Ensembl
GRCm381124,076,564 - 24,173,558 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1124,078,056 - 24,174,123 (+)EnsemblGRCm38mm10GRCm38
MGSCv371123,978,056 - 24,073,558 (+)NCBIGRCm37mm9NCBIm37
MGSCv361123,978,117 - 24,073,194 (+)NCBImm8
Celera1126,200,322 - 26,297,352 (+)NCBICelera
Cytogenetic Map11A3.2NCBI
Bcl11a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542423,233,523 - 23,330,679 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542423,233,523 - 23,330,679 (+)NCBIChiLan1.0ChiLan1.0
BCL11A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12A61,695,613 - 61,795,818 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A61,695,613 - 61,795,800 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02A60,552,908 - 60,655,437 (-)NCBIMhudiblu_PPA_v0panPan3
BCL11A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11060,589,298 - 60,691,997 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1060,589,708 - 60,689,073 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1060,476,758 - 60,576,928 (-)NCBI
ROS_Cfam_1.01061,594,834 - 61,695,110 (-)NCBI
UMICH_Zoey_3.11061,295,070 - 61,395,145 (-)NCBI
UNSW_CanFamBas_1.01061,582,263 - 61,682,432 (-)NCBI
UU_Cfam_GSD_1.01061,874,607 - 61,974,801 (-)NCBI
Bcl11a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629222,453,189 - 22,549,575 (+)NCBI
SpeTri2.0NW_0049364916,021,340 - 6,118,103 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
BCL11A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl381,196,294 - 81,296,165 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1381,195,217 - 81,296,165 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2385,284,350 - 85,384,809 (+)NCBISscrofa10.2Sscrofa10.2susScr3
BCL11A
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11446,453,102 - 46,553,802 (+)NCBI
Bcl11a
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248331,367,878 - 1,468,257 (+)NCBI

Position Markers
D14Rat32  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.014108,833,671 - 108,833,798NCBIRnor6.0
Rnor_5.014108,554,989 - 108,555,116UniSTSRnor5.0
RGSC_v3.414105,009,477 - 105,009,604UniSTSRGSC3.4
RGSC_v3.414105,009,429 - 105,009,731RGDRGSC3.4
RGSC_v3.114105,028,688 - 105,028,815RGD
Celera1497,002,956 - 97,003,083UniSTS
RH 3.4 Map14783.89RGD
RH 3.4 Map14783.89UniSTS
RH 2.0 Map14847.0RGD
SHRSP x BN Map1467.5199RGD
Cytogenetic Map14q22UniSTS
RH138170  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.014108,840,146 - 108,840,265NCBIRnor6.0
Rnor_5.014108,560,618 - 108,560,737UniSTSRnor5.0
RGSC_v3.414105,015,418 - 105,015,537UniSTSRGSC3.4
Celera1497,009,017 - 97,009,136UniSTS
RH 3.4 Map14784.69UniSTS
Cytogenetic Map14q22UniSTS
RH139319  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.014108,891,322 - 108,891,479NCBIRnor6.0
Rnor_5.014108,611,226 - 108,611,383UniSTSRnor5.0
RGSC_v3.414105,066,476 - 105,066,633UniSTSRGSC3.4
Celera1497,059,663 - 97,059,820UniSTS
RH 3.4 Map189.3UniSTS
Cytogenetic Map14q22UniSTS
RH140039  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.014108,914,846 - 108,915,054NCBIRnor6.0
Rnor_5.014108,634,750 - 108,634,958UniSTSRnor5.0
RGSC_v3.414105,090,006 - 105,090,214UniSTSRGSC3.4
Celera1497,083,187 - 97,083,395UniSTS
RH 3.4 Map14783.89UniSTS
Cytogenetic Map14q22UniSTS
RH140926  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.014108,913,735 - 108,913,939NCBIRnor6.0
Rnor_5.014108,633,639 - 108,633,843UniSTSRnor5.0
RGSC_v3.414105,088,895 - 105,089,099UniSTSRGSC3.4
Celera1497,082,076 - 97,082,280UniSTS
RH 3.4 Map14784.1UniSTS
Cytogenetic Map14q22UniSTS
AU049785  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.014108,833,648 - 108,833,908NCBIRnor6.0
Rnor_5.014108,554,966 - 108,555,226UniSTSRnor5.0
RGSC_v3.414105,009,454 - 105,009,714UniSTSRGSC3.4
Celera1497,002,933 - 97,003,193UniSTS
Cytogenetic Map14q22UniSTS
Bcl11a  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.014108,912,079 - 108,912,458NCBIRnor6.0
Rnor_5.014108,631,983 - 108,632,362UniSTSRnor5.0
RGSC_v3.414105,087,239 - 105,087,618UniSTSRGSC3.4
Celera1497,080,420 - 97,080,799UniSTS
Cytogenetic Map14q22UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1442442731108833671Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1478446303110402569Rat
1582259Gluco23Glucose level QTL 233.10.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1480049285115493446Rat
1641900Alcrsp11Alcohol response QTL 11alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)1480049285115493446Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:24
Count of miRNA genes:23
Interacting mature miRNAs:24
Transcripts:ENSRNOT00000009421
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 12 12 8 12 58 4
Low 1 40 20 10 11 10 16 14 30 10
Below cutoff 3 17 11 11 6 6 14 7 1 6

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001191683 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006251579 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006251586 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006251587 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006251588 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006251591 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006251594 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770430 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599252 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599253 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599254 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599255 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599256 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599257 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599258 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092104 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092105 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092106 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092107 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092108 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092109 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092110 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092112 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC086607 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC158689 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473996 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232639 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000254 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000009421   ⟹   ENSRNOP00000009421
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl14108,826,939 - 108,913,078 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000083146   ⟹   ENSRNOP00000073102
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl14108,826,831 - 108,921,669 (+)Ensembl
RefSeq Acc Id: NM_001191683   ⟹   NP_001178612
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21498,030,568 - 98,116,071 (+)NCBI
Rnor_6.014108,826,939 - 108,913,078 (+)NCBI
Rnor_5.014108,546,630 - 108,641,101 (+)NCBI
Celera1496,996,223 - 97,081,419 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006251579   ⟹   XP_006251641
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.014108,827,245 - 108,916,468 (+)NCBI
Rnor_5.014108,546,630 - 108,641,101 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006251586   ⟹   XP_006251648
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.014108,826,717 - 108,916,468 (+)NCBI
Rnor_5.014108,546,630 - 108,641,101 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006251587   ⟹   XP_006251649
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.014108,829,566 - 108,916,468 (+)NCBI
Rnor_5.014108,546,630 - 108,641,101 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006251588   ⟹   XP_006251650
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21498,030,795 - 98,124,181 (+)NCBI
Rnor_6.014108,826,718 - 108,921,196 (+)NCBI
Rnor_5.014108,546,630 - 108,641,101 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006251591   ⟹   XP_006251653
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.014108,894,442 - 108,916,468 (+)NCBI
Rnor_5.014108,546,630 - 108,641,101 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006251594   ⟹   XP_006251656
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21498,029,051 - 98,124,181 (+)NCBI
Rnor_6.014108,826,733 - 108,921,196 (+)NCBI
Rnor_5.014108,546,630 - 108,641,101 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008770430   ⟹   XP_008768652
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.014108,826,718 - 108,921,197 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599252   ⟹   XP_017454741
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.014108,827,245 - 108,921,197 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599253   ⟹   XP_017454742
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.014108,827,245 - 108,916,468 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599254   ⟹   XP_017454743
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.014108,827,245 - 108,916,468 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599255   ⟹   XP_017454744
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.014108,829,879 - 108,916,468 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599256   ⟹   XP_017454745
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21498,033,045 - 98,124,181 (+)NCBI
Rnor_6.014108,827,245 - 108,921,196 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599257   ⟹   XP_017454746
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.014108,862,862 - 108,916,468 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599258   ⟹   XP_017454747
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21498,033,050 - 98,124,181 (+)NCBI
Rnor_6.014108,827,252 - 108,921,197 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039092104   ⟹   XP_038948032
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21498,029,024 - 98,123,936 (+)NCBI
RefSeq Acc Id: XM_039092105   ⟹   XP_038948033
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21498,029,018 - 98,123,936 (+)NCBI
RefSeq Acc Id: XM_039092106   ⟹   XP_038948034
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21498,029,020 - 98,124,181 (+)NCBI
RefSeq Acc Id: XM_039092107   ⟹   XP_038948035
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21498,033,044 - 98,124,181 (+)NCBI
RefSeq Acc Id: XM_039092108   ⟹   XP_038948036
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21498,033,733 - 98,124,181 (+)NCBI
RefSeq Acc Id: XM_039092109   ⟹   XP_038948037
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21498,033,201 - 98,124,181 (+)NCBI
RefSeq Acc Id: XM_039092110   ⟹   XP_038948038
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21498,068,926 - 98,124,181 (+)NCBI
RefSeq Acc Id: XM_039092112   ⟹   XP_038948040
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21498,029,027 - 98,124,181 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001178612   ⟸   NM_001191683
- UniProtKB: D3ZSY3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251648   ⟸   XM_006251586
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_006251650   ⟸   XM_006251588
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006251656   ⟸   XM_006251594
- Peptide Label: isoform X10
- Sequence:
RefSeq Acc Id: XP_006251641   ⟸   XM_006251579
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006251649   ⟸   XM_006251587
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_006251653   ⟸   XM_006251591
- Peptide Label: isoform X11
- Sequence:
RefSeq Acc Id: XP_008768652   ⟸   XM_008770430
- Peptide Label: isoform X14
- Sequence:
RefSeq Acc Id: XP_017454741   ⟸   XM_017599252
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017454745   ⟸   XM_017599256
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017454742   ⟸   XM_017599253
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017454743   ⟸   XM_017599254
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017454747   ⟸   XM_017599258
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_017454744   ⟸   XM_017599255
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017454746   ⟸   XM_017599257
- Peptide Label: isoform X10
- Sequence:
RefSeq Acc Id: ENSRNOP00000009421   ⟸   ENSRNOT00000009421
RefSeq Acc Id: ENSRNOP00000073102   ⟸   ENSRNOT00000083146
RefSeq Acc Id: XP_038948033   ⟸   XM_039092105
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038948034   ⟸   XM_039092106
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038948032   ⟸   XM_039092104
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038948040   ⟸   XM_039092112
- Peptide Label: isoform X11
RefSeq Acc Id: XP_038948035   ⟸   XM_039092107
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038948037   ⟸   XM_039092109
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038948036   ⟸   XM_039092108
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038948038   ⟸   XM_039092110
- Peptide Label: isoform X8
Protein Domains
C2H2-type

Transcriptome

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

Promoters
RGD ID:13699535
Promoter ID:EPDNEW_R10050
Type:multiple initiation site
Name:Bcl11a_1
Description:B-cell CLL/lymphoma 11A
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_6.014108,826,812 - 108,826,872EPDNEW

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)
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
Buf/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
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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
FHH/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)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (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)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (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
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309923 AgrOrtholog
Ensembl Genes ENSRNOG00000007049 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000009421 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000073102 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000009421 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000083146 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:8375842 IMAGE-MGC_LOAD
InterPro Znf_C2H2/integrase_DNA-bd UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/TrEMBL
KEGG Report rno:305589 UniProtKB/TrEMBL
MGC_CLONE MGC:187706 IMAGE-MGC_LOAD
NCBI Gene 305589 ENTREZGENE
Pfam zf-C2H2 UniProtKB/TrEMBL
PhenoGen Bcl11a PhenoGen
PROSITE ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
SMART ZnF_C2H2 UniProtKB/TrEMBL
Superfamily-SCOP SSF57667 UniProtKB/TrEMBL
UniProt A0A0G2K4M7_RAT UniProtKB/TrEMBL
  D3ZSY3 ENTREZGENE, UniProtKB/TrEMBL
  Q5RJJ9_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-04-02 Bcl11a  BAF chromatin remodeling complex subunit BCL11A  Bcl11a  BCL11A, BAF complex component  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2018-11-09 Bcl11a  BCL11A, BAF complex component  Bcl11a  B-cell CLL/lymphoma 11A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-01-13 Bcl11a  B-cell CLL/lymphoma 11A  Bcl11a  B-cell CLL/lymphoma 11A (zinc finger protein)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Bcl11a  B-cell CLL/lymphoma 11A (zinc finger protein)  Bcl11a_predicted  B-cell CLL/lymphoma 11A (zinc finger protein) (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Bcl11a_predicted  B-cell CLL/lymphoma 11A (zinc finger protein) (predicted)      Symbol and Name status set to approved 70820 APPROVED