Bcl11a (BCL11 transcription factor A) - Rat Genome Database

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Gene: Bcl11a (BCL11 transcription factor A) Rattus norvegicus
Analyze
Symbol: Bcl11a
Name: BCL11 transcription factor A
RGD ID: 1309923
Description: Enables 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. Is active in postsynapse. Human ortholog(s) of this gene implicated in autism spectrum disorder; beta thalassemia; schizophrenia; and sickle cell anemia. Orthologous to human BCL11A (BCL11 transcription factor A); INTERACTS WITH 1,3-dinitrobenzene; 2-methoxyethanol; amphetamine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: B-cell CLL/lymphoma 11A; B-cell CLL/lymphoma 11A (zinc finger protein); B-cell lymphoma/leukemia 11A; BAF chromatin remodeling complex subunit BCL11A; BCL11A, BAF complex component; LOC305589
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr814102,230,147 - 102,325,289 (+)NCBIGRCr8
mRatBN7.21498,029,018 - 98,124,181 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1498,030,461 - 98,124,180 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx14102,356,972 - 102,441,929 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.014103,601,214 - 103,686,130 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.014100,072,890 - 100,157,850 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.014108,826,717 - 108,921,197 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl14108,826,831 - 108,921,669 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.014108,546,630 - 108,641,101 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.414105,002,744 - 105,088,365 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
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)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2-methoxyethanol  (EXP)
2-methylcholine  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
acrylamide  (ISO)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
aldehydo-D-glucose  (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)
bisphenol AF  (ISO)
buta-1,3-diene  (ISO)
butanal  (ISO)
carbon nanotube  (ISO)
casticin  (ISO)
CGP 52608  (ISO)
chloroprene  (ISO)
choline  (ISO)
chrysene  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
D-glucose  (ISO)
Dibutyl phosphate  (ISO)
dichloroacetic acid  (ISO)
dioxygen  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
elemental selenium  (ISO)
entinostat  (ISO)
ethanol  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
FR900359  (ISO)
fructose  (ISO)
fulvestrant  (ISO)
geraniol  (ISO)
glucose  (ISO)
glyphosate  (ISO)
hydroquinone  (ISO)
L-methionine  (ISO)
lipopolysaccharide  (ISO)
maneb  (ISO)
mercury dibromide  (ISO)
methoxychlor  (EXP)
methylmercury chloride  (ISO)
nickel atom  (ISO)
nickel sulfate  (ISO)
nitrates  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
panobinostat  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
pentanal  (ISO)
phenylmercury acetate  (ISO)
pioglitazone  (ISO)
progesterone  (ISO)
propanal  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sunitinib  (ISO)
tamibarotene  (ISO)
temozolomide  (ISO)
testosterone  (ISO)
thiram  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
Tributyltin oxide  (ISO)
trichloroethene  (EXP)
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
nuclear body  (ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IBA,IEA,ISO)
paraspeckles  (ISO)
postsynapse  (IDA,IEP)
SWI/SNF complex  (IEA,ISO)

References

References - curated
# Reference Title Reference Citation
1. Genetic Modifiers in beta-Thalassemia Intermedia: A Study on 102 Iraqi Arab Patients. 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. BCL11A deletions result in fetal hemoglobin persistence and neurodevelopmental alterations. Basak A, etal., J Clin Invest. 2015 Jun;125(6):2363-8. doi: 10.1172/JCI81163. Epub 2015 May 4.
3. Molecular mechanism of yisui shengxue granule, a complex chinese medicine, on thalassemia patients suffering from hemolysis and anemia of erythrocytes. Chu NL, etal., Evid Based Complement Alternat Med. 2014;2014:213782. doi: 10.1155/2014/213782. Epub 2014 Dec 10.
4. Synaptic, transcriptional and chromatin genes disrupted in autism. De Rubeis S, etal., Nature. 2014 Nov 13;515(7526):209-15. doi: 10.1038/nature13772. Epub 2014 Oct 29.
5. Hydroxycarbamide alters erythroid gene expression in children with sickle cell anaemia. 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. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
7. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
8. Analysis of rs4671393 polymorphism in hemoglobin E/beta-thalassemia major in Guangxi Province of China. He Y, etal., J Pediatr Hematol Oncol. 2012 May;34(4):323-4. doi: 10.1097/MPH.0b013e3182370bff.
9. BCL11A overexpression predicts survival and relapse in non-small cell lung cancer and is modulated by microRNA-30a and gene amplification. Jiang BY, etal., Mol Cancer. 2013 Jun 12;12:61. doi: 10.1186/1476-4598-12-61.
10. Expression of zinc finger transcription factor Bcl11A/Evi9/CTIP1 in rat brain. Kuo TY and Hsueh YP, J Neurosci Res. 2007 Jun;85(8):1628-36.
11. Bcl11A/CTIP1 mediates the effect of the glutamate receptor on axon branching and dendrite outgrowth. 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. X-linked mental retardation gene CASK interacts with Bcl11A/CTIP1 and regulates axon branching and outgrowth. Kuo TY, etal., J Neurosci Res. 2010 Aug 15;88(11):2364-73. doi: 10.1002/jnr.22407.
13. Bcl11A/CTIP1 regulates expression of DCC and MAP1b in control of axon branching and dendrite outgrowth. 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. DNA polymorphisms at the BCL11A, HBS1L-MYB, and beta-globin loci associate with fetal hemoglobin levels and pain crises in sickle cell disease. 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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
16. The influence of the BCL11A polymorphism on the phenotype of patients with beta thalassemia could be affected by the beta globin locus control region and/or the Xmn1-HBG2 genotypic background. 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. GOA pipeline RGD automated data pipeline
18. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
19. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
20. The BCL11 gene family: involvement of BCL11A in lymphoid malignancies. Satterwhite E, etal., Blood. 2001 Dec 1;98(12):3413-20.
21. Correction of sickle cell disease in adult mice by interference with fetal hemoglobin silencing. 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   PMID:37316757  


Genomics

Comparative Map Data
Bcl11a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr814102,230,147 - 102,325,289 (+)NCBIGRCr8
mRatBN7.21498,029,018 - 98,124,181 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1498,030,461 - 98,124,180 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx14102,356,972 - 102,441,929 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.014103,601,214 - 103,686,130 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.014100,072,890 - 100,157,850 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.014108,826,717 - 108,921,197 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl14108,826,831 - 108,921,669 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.014108,546,630 - 108,641,101 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.414105,002,744 - 105,088,365 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
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
GRCh38260,450,520 - 60,553,924 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl260,450,520 - 60,554,467 (-)EnsemblGRCh38hg38GRCh38
GRCh37260,677,655 - 60,781,059 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36260,531,806 - 60,634,137 (-)NCBINCBI36Build 36hg18NCBI36
Build 34260,589,952 - 60,692,284NCBI
Celera260,521,903 - 60,624,215 (-)NCBICelera
Cytogenetic Map2p16.1NCBI
HuRef260,420,518 - 60,522,477 (-)NCBIHuRef
CHM1_1260,608,322 - 60,710,989 (-)NCBICHM1_1
T2T-CHM13v2.0260,456,325 - 60,559,762 (-)NCBIT2T-CHM13v2.0
Bcl11a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391124,026,498 - 24,123,558 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1124,028,056 - 24,124,123 (+)EnsemblGRCm39 Ensembl
GRCm381124,076,564 - 24,173,558 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1124,078,056 - 24,174,123 (+)EnsemblGRCm38mm10GRCm38
MGSCv371123,978,056 - 24,073,558 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361123,978,117 - 24,073,194 (+)NCBIMGSCv36mm8
Celera1126,200,322 - 26,297,352 (+)NCBICelera
Cytogenetic Map11A3.2NCBI
cM Map1114.41NCBI
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
NHGRI_mPanPan1-v21265,812,483 - 65,916,535 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A65,816,446 - 65,920,488 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A60,552,908 - 60,655,437 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A61,695,613 - 61,795,818 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A61,695,613 - 61,795,800 (-)Ensemblpanpan1.1panPan2
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 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01061,594,834 - 61,695,110 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1061,594,834 - 61,695,003 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11061,295,070 - 61,395,145 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01061,582,263 - 61,682,432 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01061,874,607 - 61,974,801 (-)NCBIUU_Cfam_GSD_1.0
Bcl11a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629222,453,189 - 22,549,575 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364916,021,343 - 6,118,568 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
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 - 81,296,382 (+)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 - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11446,453,102 - 46,553,802 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604565,253,058 - 65,353,332 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Bcl11a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248331,367,781 - 1,468,400 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248331,367,878 - 1,468,257 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Bcl11a
369 total Variants
miRNA Target Status (No longer updated)

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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1458184885103184885Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1455624247100624247Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1456631369101631369Rat
1641900Alcrsp11Alcohol response QTL 11alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)1470053989104886043Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1455147478100147478Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1455624247100624247Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)144079346098037301Rat
1582259Gluco23Glucose level QTL 233.10.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1470053989104886043Rat

Markers in Region
D14Rat32  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr814102,238,412 - 102,238,540 (+)Marker Load Pipeline
mRatBN7.21498,037,301 - 98,037,429 (+)MAPPERmRatBN7.2
Rnor_6.014108,833,671 - 108,833,798NCBIRnor6.0
Rnor_5.014108,554,989 - 108,555,116UniSTSRnor5.0
RGSC_v3.414105,009,429 - 105,009,731RGDRGSC3.4
RGSC_v3.414105,009,477 - 105,009,604UniSTSRGSC3.4
RGSC_v3.114105,028,688 - 105,028,815RGD
Celera1497,002,956 - 97,003,083UniSTS
RH 3.4 Map14783.89UniSTS
RH 3.4 Map14783.89RGD
RH 2.0 Map14847.0RGD
SHRSP x BN Map1467.5199RGD
Cytogenetic Map14q22UniSTS
RH138170  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21498,043,268 - 98,043,388 (+)MAPPERmRatBN7.2
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
mRatBN7.21498,094,315 - 98,094,473 (+)MAPPERmRatBN7.2
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
GRCr814102,318,946 - 102,319,155 (+)Marker Load Pipeline
mRatBN7.21498,117,838 - 98,118,047 (+)MAPPERmRatBN7.2
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
mRatBN7.21498,116,727 - 98,116,932 (+)MAPPERmRatBN7.2
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
GRCr814102,238,389 - 102,238,650 (+)Marker Load Pipeline
mRatBN7.21498,037,278 - 98,037,539 (+)MAPPERmRatBN7.2
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
mRatBN7.21498,115,071 - 98,115,451 (+)MAPPERmRatBN7.2
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


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 6 49 113 83 82 51 25 51 6 197 94 93 37 60 31

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_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_063273272 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063273273 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063273274 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063273275 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063273276 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063273277 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063273278 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063273279 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063273280 (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
  JAXUCZ010000014 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000009421   ⟹   ENSRNOP00000009421
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1498,030,461 - 98,123,956 (+)Ensembl
Rnor_6.0 Ensembl14108,826,939 - 108,913,078 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000083146   ⟹   ENSRNOP00000073102
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1498,030,461 - 98,124,180 (+)Ensembl
Rnor_6.0 Ensembl14108,826,831 - 108,921,669 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000102043   ⟹   ENSRNOP00000091732
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1498,036,725 - 98,116,965 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000106316   ⟹   ENSRNOP00000093688
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1498,030,461 - 98,116,965 (+)Ensembl
RefSeq Acc Id: NM_001191683   ⟹   NP_001178612
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814102,231,680 - 102,317,179 (+)NCBI
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_006251588   ⟹   XP_006251650
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814102,230,156 - 102,325,289 (+)NCBI
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_006251594   ⟹   XP_006251656
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814102,230,181 - 102,325,289 (+)NCBI
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_017599256   ⟹   XP_017454745
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814102,234,156 - 102,325,289 (+)NCBI
mRatBN7.21498,033,045 - 98,124,181 (+)NCBI
Rnor_6.014108,827,245 - 108,921,196 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599258   ⟹   XP_017454747
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814102,234,161 - 102,325,289 (+)NCBI
mRatBN7.21498,033,050 - 98,124,181 (+)NCBI
Rnor_6.014108,827,252 - 108,921,197 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039092105   ⟹   XP_038948033
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814102,230,147 - 102,320,569 (+)NCBI
mRatBN7.21498,029,018 - 98,123,936 (+)NCBI
RefSeq Acc Id: XM_039092106   ⟹   XP_038948034
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814102,230,149 - 102,325,289 (+)NCBI
mRatBN7.21498,029,020 - 98,124,181 (+)NCBI
RefSeq Acc Id: XM_039092107   ⟹   XP_038948035
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814102,234,155 - 102,320,569 (+)NCBI
mRatBN7.21498,033,044 - 98,124,181 (+)NCBI
RefSeq Acc Id: XM_039092108   ⟹   XP_038948036
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814102,234,871 - 102,320,569 (+)NCBI
mRatBN7.21498,033,733 - 98,124,181 (+)NCBI
RefSeq Acc Id: XM_039092109   ⟹   XP_038948037
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814102,234,309 - 102,320,569 (+)NCBI
mRatBN7.21498,033,201 - 98,124,181 (+)NCBI
RefSeq Acc Id: XM_039092110   ⟹   XP_038948038
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814102,256,829 - 102,320,569 (+)NCBI
mRatBN7.21498,068,926 - 98,124,181 (+)NCBI
RefSeq Acc Id: XM_063273272   ⟹   XP_063129342
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814102,234,156 - 102,320,569 (+)NCBI
RefSeq Acc Id: XM_063273273   ⟹   XP_063129343
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814102,234,156 - 102,324,928 (+)NCBI
RefSeq Acc Id: XM_063273274   ⟹   XP_063129344
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814102,234,156 - 102,325,289 (+)NCBI
RefSeq Acc Id: XM_063273275   ⟹   XP_063129345
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814102,234,155 - 102,320,569 (+)NCBI
RefSeq Acc Id: XM_063273276   ⟹   XP_063129346
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814102,230,154 - 102,325,289 (+)NCBI
RefSeq Acc Id: XM_063273277   ⟹   XP_063129347
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814102,234,155 - 102,325,289 (+)NCBI
RefSeq Acc Id: XM_063273278   ⟹   XP_063129348
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814102,230,151 - 102,325,289 (+)NCBI
RefSeq Acc Id: XM_063273279   ⟹   XP_063129349
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814102,234,158 - 102,325,289 (+)NCBI
RefSeq Acc Id: XM_063273280   ⟹   XP_063129350
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814102,230,169 - 102,325,289 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001178612 (Get FASTA)   NCBI Sequence Viewer  
  XP_006251650 (Get FASTA)   NCBI Sequence Viewer  
  XP_006251656 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454745 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454747 (Get FASTA)   NCBI Sequence Viewer  
  XP_038948033 (Get FASTA)   NCBI Sequence Viewer  
  XP_038948034 (Get FASTA)   NCBI Sequence Viewer  
  XP_038948035 (Get FASTA)   NCBI Sequence Viewer  
  XP_038948036 (Get FASTA)   NCBI Sequence Viewer  
  XP_038948037 (Get FASTA)   NCBI Sequence Viewer  
  XP_038948038 (Get FASTA)   NCBI Sequence Viewer  
  XP_063129342 (Get FASTA)   NCBI Sequence Viewer  
  XP_063129343 (Get FASTA)   NCBI Sequence Viewer  
  XP_063129344 (Get FASTA)   NCBI Sequence Viewer  
  XP_063129345 (Get FASTA)   NCBI Sequence Viewer  
  XP_063129346 (Get FASTA)   NCBI Sequence Viewer  
  XP_063129347 (Get FASTA)   NCBI Sequence Viewer  
  XP_063129348 (Get FASTA)   NCBI Sequence Viewer  
  XP_063129349 (Get FASTA)   NCBI Sequence Viewer  
  XP_063129350 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH86607 (Get FASTA)   NCBI Sequence Viewer  
  AAI58690 (Get FASTA)   NCBI Sequence Viewer  
  EDL97999 (Get FASTA)   NCBI Sequence Viewer  
  EDL98000 (Get FASTA)   NCBI Sequence Viewer  
  EDL98001 (Get FASTA)   NCBI Sequence Viewer  
  EDL98002 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000009421
  ENSRNOP00000009421.5
  ENSRNOP00000073102
  ENSRNOP00000073102.2
  ENSRNOP00000091732
  ENSRNOP00000091732.1
  ENSRNOP00000093688
  ENSRNOP00000093688.1
RefSeq Acc Id: NP_001178612   ⟸   NM_001191683
- UniProtKB: A0A8I6AXE0 (UniProtKB/TrEMBL),   A0A8I6ATN1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251650   ⟸   XM_006251588
- Peptide Label: isoform X11
- UniProtKB: D3ZSY3 (UniProtKB/TrEMBL),   A6JQ83 (UniProtKB/TrEMBL),   A0A8I6ATN1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251656   ⟸   XM_006251594
- Peptide Label: isoform X16
- UniProtKB: Q5RJJ9 (UniProtKB/TrEMBL),   B0BN54 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017454745   ⟸   XM_017599256
- Peptide Label: isoform X5
- UniProtKB: A0A8I6ATN1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017454747   ⟸   XM_017599258
- Peptide Label: isoform X14
- UniProtKB: A6JQ84 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000009421   ⟸   ENSRNOT00000009421
Ensembl Acc Id: ENSRNOP00000073102   ⟸   ENSRNOT00000083146
RefSeq Acc Id: XP_038948033   ⟸   XM_039092105
- Peptide Label: isoform X8
- UniProtKB: A0A8I6ATN1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038948034   ⟸   XM_039092106
- Peptide Label: isoform X10
- UniProtKB: A0A8I6ATN1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038948035   ⟸   XM_039092107
- Peptide Label: isoform X4
- UniProtKB: A0A8I6ATN1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038948037   ⟸   XM_039092109
- Peptide Label: isoform X1
- UniProtKB: A0A8I6ATN1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038948036   ⟸   XM_039092108
- Peptide Label: isoform X6
- UniProtKB: A0A8I6ATN1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038948038   ⟸   XM_039092110
- Peptide Label: isoform X12
- UniProtKB: A0A8I6ATN1 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000091732   ⟸   ENSRNOT00000102043
Ensembl Acc Id: ENSRNOP00000093688   ⟸   ENSRNOT00000106316
RefSeq Acc Id: XP_063129348   ⟸   XM_063273278
- Peptide Label: isoform X13
- UniProtKB: A0A8I6ATN1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063129346   ⟸   XM_063273276
- Peptide Label: isoform X7
- UniProtKB: A0A8I6ATN1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063129350   ⟸   XM_063273280
- Peptide Label: isoform X17
- UniProtKB: A0A0G2K4M7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063129347   ⟸   XM_063273277
- Peptide Label: isoform X9
RefSeq Acc Id: XP_063129345   ⟸   XM_063273275
- Peptide Label: isoform X3
- UniProtKB: A0A8I6ATN1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063129344   ⟸   XM_063273274
- Peptide Label: isoform X2
- UniProtKB: A0A8I6ATN1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063129343   ⟸   XM_063273273
- Peptide Label: isoform X1
- UniProtKB: A0A8I6ATN1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063129342   ⟸   XM_063273272
- Peptide Label: isoform X1
- UniProtKB: A0A8I6ATN1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063129349   ⟸   XM_063273279
- Peptide Label: isoform X15
Protein Domains
C2H2-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZSY3-F1-model_v2 AlphaFold D3ZSY3 1-835 view protein structure

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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309923 AgrOrtholog
BioCyc Gene G2FUF-14756 BioCyc
Ensembl Genes ENSRNOG00000007049 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000009421 ENTREZGENE
  ENSRNOT00000009421.7 UniProtKB/TrEMBL
  ENSRNOT00000083146 ENTREZGENE
  ENSRNOT00000083146.2 UniProtKB/TrEMBL
  ENSRNOT00000102043 ENTREZGENE
  ENSRNOT00000102043.1 UniProtKB/TrEMBL
  ENSRNOT00000106316 ENTREZGENE
  ENSRNOT00000106316.1 UniProtKB/TrEMBL
Gene3D-CATH Classic Zinc Finger UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:8375842 IMAGE-MGC_LOAD
InterPro Dev/Hematopoietic_TF UniProtKB/TrEMBL
  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
PANTHER B-CELL LYMPHOMA/LEUKEMIA 11 UniProtKB/TrEMBL
  B-CELL LYMPHOMA/LEUKEMIA 11A UniProtKB/TrEMBL
Pfam zf-C2H2 UniProtKB/TrEMBL
PhenoGen Bcl11a PhenoGen
PROSITE ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000007049 RatGTEx
SMART ZnF_C2H2 UniProtKB/TrEMBL
Superfamily-SCOP SSF57667 UniProtKB/TrEMBL
UniProt A0A0G2K4M7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6ATN1 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AXE0 ENTREZGENE, UniProtKB/TrEMBL
  A6JQ83 ENTREZGENE, UniProtKB/TrEMBL
  A6JQ84 ENTREZGENE, UniProtKB/TrEMBL
  B0BN54 ENTREZGENE, UniProtKB/TrEMBL
  D3ZSY3 ENTREZGENE, UniProtKB/TrEMBL
  Q5RJJ9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-11-28 Bcl11a  BCL11 transcription factor A  Bcl11a  BAF chromatin remodeling complex subunit BCL11A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
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