Tubb2a (tubulin, beta 2A class IIa) - Rat Genome Database

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Gene: Tubb2a (tubulin, beta 2A class IIa) Rattus norvegicus
Analyze
Symbol: Tubb2a
Name: tubulin, beta 2A class IIa
RGD ID: 1588452
Description: Predicted to enable GTP binding activity. Predicted to be a structural constituent of cytoskeleton. Predicted to be involved in microtubule cytoskeleton organization; mitotic cell cycle; and neuron migration. Predicted to be located in intercellular bridge and mitotic spindle. Predicted to be active in cytoplasm and microtubule. Human ortholog(s) of this gene implicated in complex cortical dysplasia with other brain malformations 5. Orthologous to human TUBB2A (tubulin beta 2A class IIa); PARTICIPATES IN phagocytosis pathway; INTERACTS WITH (+)-schisandrin B; 1,3-dinitrobenzene; 2,2',4,4'-Tetrabromodiphenyl ether.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC108348176; LOC498736; similar to tubulin, beta 2; T beta-15; Tubb2b; tubulin beta-2A chain; tubulin beta-2A chain pseudogene; Tubulin beta-2B chain; tubulin, beta 2A
RGD Orthologs
Human
Mouse
Bonobo
Dog
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21730,796,842 - 30,800,713 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1730,747,503 - 30,800,714 (+)Ensembl
Rnor_6.01731,493,145 - 31,496,827 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1731,493,107 - 31,498,651 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01733,390,589 - 33,391,837 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41737,139,177 - 37,143,049 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1730,361,117 - 30,364,988 (+)NCBICelera
Cytogenetic Map17p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
1,2-dimethylhydrazine  (ISO)
1,3-dinitrobenzene  (EXP)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (EXP)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-bromo-2'-deoxyuridine  (ISO)
5-fluorouracil  (ISO)
acetamide  (EXP)
acrylamide  (ISO)
aldehydo-D-glucose  (ISO)
antimycin A  (ISO)
aripiprazole  (EXP)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
azoxystrobin  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[b]fluoranthene  (ISO)
Benzo[k]fluoranthene  (ISO)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
bleomycin A2  (EXP,ISO)
bortezomib  (ISO)
bromobenzene  (EXP)
buspirone  (EXP)
butanal  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP)
captan  (ISO)
carbon nanotube  (ISO)
choline  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
clobetasol  (ISO)
clofibrate  (ISO)
cobalt dichloride  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
D-glucose  (ISO)
decabromodiphenyl ether  (EXP,ISO)
deguelin  (ISO)
dexamethasone  (ISO)
dibenz[a,h]anthracene  (ISO)
dibutyl phthalate  (EXP)
dioxygen  (ISO)
disulfiram  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
Enterolactone  (ISO)
entinostat  (ISO)
ethanol  (ISO)
flutamide  (EXP)
folic acid  (ISO)
folpet  (ISO)
formaldehyde  (ISO)
fumonisin B1  (ISO)
furan  (EXP,ISO)
glucose  (ISO)
graphene oxide  (ISO)
HC toxin  (ISO)
hexadecanoic acid  (ISO)
indometacin  (ISO)
isobutanol  (ISO)
isoprenaline  (ISO)
ivermectin  (ISO)
L-methionine  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
Licochalcone B  (ISO)
methamphetamine  (EXP)
methapyrilene  (EXP)
methotrexate  (ISO)
methylisothiazolinone  (ISO)
methylmercury chloride  (ISO)
N-nitrosodiethylamine  (ISO)
N-nitrosomorpholine  (EXP)
nefazodone  (EXP)
nimesulide  (EXP)
oleic acid  (ISO)
oxaliplatin  (EXP)
p-toluidine  (EXP)
panobinostat  (ISO)
paracetamol  (EXP,ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenethyl isothiocyanate  (ISO)
phenformin  (EXP)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
progesterone  (ISO)
propiconazole  (ISO)
rotenone  (EXP,ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (EXP,ISO)
sodium fluoride  (ISO)
Soman  (EXP)
sunitinib  (ISO)
tamoxifen  (ISO)
tebufenpyrad  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone undecanoate  (ISO)
tetrachloroethene  (ISO)
tetrachloromethane  (EXP,ISO)
tetraphene  (ISO)
thifluzamide  (ISO)
thimerosal  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
topotecan  (EXP)
tributylstannane  (ISO)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
triphenyl phosphate  (EXP)
triptonide  (ISO)
trovafloxacin  (EXP)
valproic acid  (ISO)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:2868892   PMID:15057822   PMID:15865439   PMID:19056867   PMID:21525035   PMID:21630459   PMID:22871113   PMID:24625528   PMID:24769233   PMID:25931508   PMID:29476059   PMID:31505169  
PMID:31904090  


Genomics

Comparative Map Data
Tubb2a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21730,796,842 - 30,800,713 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1730,747,503 - 30,800,714 (+)Ensembl
Rnor_6.01731,493,145 - 31,496,827 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1731,493,107 - 31,498,651 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01733,390,589 - 33,391,837 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41737,139,177 - 37,143,049 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1730,361,117 - 30,364,988 (+)NCBICelera
Cytogenetic Map17p12NCBI
TUBB2A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3863,153,666 - 3,157,544 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl63,153,497 - 3,157,544 (-)EnsemblGRCh38hg38GRCh38
GRCh3763,153,900 - 3,157,778 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3663,098,899 - 3,102,782 (-)NCBINCBI36hg18NCBI36
Build 3463,098,902 - 3,102,759NCBI
Celera64,382,770 - 4,386,674 (-)NCBI
Cytogenetic Map6p25.2NCBI
HuRef63,024,011 - 3,027,895 (-)NCBIHuRef
CHM1_163,153,792 - 3,157,676 (-)NCBICHM1_1
T2T-CHM13v2.063,020,886 - 3,024,765 (-)NCBI
Tubb2a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391334,258,261 - 34,261,991 (-)NCBIGRCm39mm39
GRCm39 Ensembl1334,258,257 - 34,261,990 (-)Ensembl
GRCm381334,074,278 - 34,078,008 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1334,074,274 - 34,078,007 (-)EnsemblGRCm38mm10GRCm38
MGSCv371334,166,147 - 34,169,877 (-)NCBIGRCm37mm9NCBIm37
MGSCv361334,081,743 - 34,085,453 (-)NCBImm8
Celera1335,203,665 - 35,207,395 (-)NCBICelera
Cytogenetic Map13A3.3NCBI
cM Map1314.03NCBI
TUBB2A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.163,083,230 - 3,085,242 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v062,993,653 - 2,997,570 (-)NCBIMhudiblu_PPA_v0panPan3
TUBB2A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1353,448,402 - 3,450,783 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl353,448,435 - 3,452,091 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha353,456,142 - 3,460,841 (-)NCBI
ROS_Cfam_1.0353,505,153 - 3,509,899 (-)NCBI
ROS_Cfam_1.0 Ensembl353,505,153 - 3,558,836 (-)Ensembl
UMICH_Zoey_3.1353,380,360 - 3,384,881 (-)NCBI
UNSW_CanFamBas_1.0353,402,361 - 3,407,093 (-)NCBI
UU_Cfam_GSD_1.0354,734,869 - 4,739,525 (-)NCBI

Position Markers
RH141796  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21730,797,428 - 30,797,622 (+)MAPPERmRatBN7.2
Rnor_6.01731,493,732 - 31,493,925NCBIRnor6.0
Rnor_5.01733,386,918 - 33,387,111UniSTSRnor5.0
RGSC_v3.41737,139,765 - 37,139,958UniSTSRGSC3.4
Celera1730,361,704 - 30,361,897UniSTS
RH 3.4 Map17326.32UniSTS
Cytogenetic Map17p12UniSTS
Tubb2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21730,800,424 - 30,800,619 (+)MAPPERmRatBN7.2
Rnor_6.01731,498,363 - 31,498,557NCBIRnor6.0
Rnor_5.01733,391,549 - 33,391,743UniSTSRnor5.0
RGSC_v3.41737,142,761 - 37,142,955UniSTSRGSC3.4
Celera1730,364,700 - 30,364,894UniSTS
Cytogenetic Map17p12UniSTS
MARC_26445-26446:1030655521:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21730,749,123 - 30,749,576 (+)MAPPERmRatBN7.2
mRatBN7.21730,798,685 - 30,799,569 (+)MAPPERmRatBN7.2
Rnor_6.01731,494,989 - 31,495,872NCBIRnor6.0
Rnor_6.01731,443,030 - 31,443,482NCBIRnor6.0
Rnor_5.01733,388,175 - 33,389,058UniSTSRnor5.0
Rnor_5.01733,337,455 - 33,337,907UniSTSRnor5.0
RGSC_v3.41737,089,312 - 37,089,764UniSTSRGSC3.4
RGSC_v3.41737,141,022 - 37,141,905UniSTSRGSC3.4
Celera1730,362,961 - 30,363,844UniSTS
Celera1730,313,507 - 30,313,959UniSTS
Cytogenetic Map17p12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10401807Kidm52Kidney mass QTL 52kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17131701463Rat
70184BpQTLcluster14Blood pressure QTL cluster 143.38arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)17131990913Rat
631207Niddm41Non-insulin dependent diabetes mellitus QTL 41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)17137830672Rat
1354658Spl8Serum phospholipid level QTL 83.8blood VLDL phospholipid amount (VT:0010507)blood very low density lipoprotein phospholipid level (CMO:0001571)17160781592Rat
1354581Bp247Blood pressure QTL 2474.5arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)17169599340Rat
1354662Rf49Renal function QTL 492.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)17169599340Rat
1300123Bp194Blood pressure QTL 1942.82arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)17211514934551001Rat
1354613Kidm14Kidney mass QTL 146.2kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)17429913035837242Rat
1354596Bw32Body weight QTL 324.5body mass (VT:0001259)body weight (CMO:0000012)17429913060781592Rat
1354630Cm34Cardiac mass QTL 348.7heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)17429913069599340Rat
1354638Insul1Insulin level QTL 14.8blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)17429913069599340Rat
1354651Lmblg2Limb length QTL 26tibia length (VT:0004357)tibia length (CMO:0000450)17429913069599340Rat
2303627Vencon8Ventilatory control QTL 80.001respiration trait (VT:0001943)tidal volume (CMO:0000222)17452803849528038Rat
10054088Scort28Serum corticosterone level QTL 282.040.0102blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17452803849528038Rat
2303561Bw91Body weight QTL 912body mass (VT:0001259)body weight (CMO:0000012)17886846253868462Rat
2300002Iddm36Insulin dependent diabetes mellitus QTL 361.98blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)17999128640540197Rat
1331765Hrtrt15Heart rate QTL 154.094heart pumping trait (VT:2000009)heart rate (CMO:0000002)171533061355836425Rat
1354640Scl32Serum cholesterol level QTL 325.4blood HDL cholesterol amount (VT:0000184)blood high density lipoprotein cholesterol level (CMO:0000052)171578159260781592Rat
1354659Scl68Serum cholesterol level QTL 683.9blood VLDL cholesterol amount (VT:0005144)blood very low density lipoprotein cholesterol level (CMO:0000648)171578159260781592Rat
7394837Memor18Memory QTL 18exploratory behavior trait (VT:0010471)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)171864018263640182Rat
1354628Stl13Serum triglyceride level QTL 133.8blood triglyceride amount (VT:0002644)blood triglyceride level (CMO:0000118)172129303960781592Rat
70157Niddm32Non-insulin dependent diabetes mellitus QTL 324.34blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)172245492450909196Rat
61394Bp8Blood pressure QTL 82.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)172308056759555013Rat
7488966Bp370Blood pressure QTL 3700.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)172365318457246843Rat
12903978Cm118Cardiac mass QTL 1180.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)172365318468653184Rat
12903979Cm119Cardiac mass QTL 1190.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)172365318468653184Rat
12903980Cm120Cardiac mass QTL 1200.002heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)172365318468653184Rat
12903981Am17Aortic mass QTL 170.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)172365318468653184Rat
1559055Bp278Blood pressure QTL 2780.04arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)172365318468653184Rat
12903982Kidm70Kidney mass QTL 700.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)172365318470974005Rat
1354619Bp242Blood pressure QTL 2426.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)172459934069599340Rat
4889891Eae32Experimental allergic encephalomyelitis QTL 324.80.0002nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)172702794936146731Rat
1581512Cm55Cardiac mass QTL 552.80.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)172702794956836890Rat
4889955Bss93Bone structure and strength QTL 934.4tibia size trait (VT:0100001)tibia cortical bone volume to tibia total bone volume ratio (CMO:0001727)172702794960463643Rat
2302377Scl61Serum cholesterol level QTL 614.36blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)172738994653481766Rat
8552928Pigfal9Plasma insulin-like growth factor 1 level QTL 99blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)172840914773409147Rat
9590107Sffal7Serum free fatty acids level QTL 74.810.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)172840914773409147Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:15
Count of miRNA genes:14
Interacting mature miRNAs:15
Transcripts:ENSRNOT00000023611
Prediction methods:Miranda, Rnahybrid
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 22 20 3 20 70 22 16 11
Low 1 43 35 21 16 21 8 11 4 13 25 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000023582   ⟹   ENSRNOP00000023582
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1730,747,503 - 30,800,703 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000023611   ⟹   ENSRNOP00000023611
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1730,798,942 - 30,800,668 (+)Ensembl
Rnor_6.0 Ensembl1731,493,107 - 31,496,825 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000086264   ⟹   ENSRNOP00000071729
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1730,796,841 - 30,800,714 (+)Ensembl
Rnor_6.0 Ensembl1731,493,145 - 31,498,651 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000099483   ⟹   ENSRNOP00000093166
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1730,796,841 - 30,800,708 (+)Ensembl
RefSeq Acc Id: NM_001109119   ⟹   NP_001102589
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21730,796,842 - 30,800,713 (+)NCBI
Rnor_6.01731,493,145 - 31,496,827 (+)NCBI
Rnor_5.01733,390,589 - 33,391,837 (+)NCBI
RGSC_v3.41737,139,177 - 37,143,049 (+)RGD
Celera1730,361,117 - 30,364,988 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001102589 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAA27067 (Get FASTA)   NCBI Sequence Viewer  
  EDL98318 (Get FASTA)   NCBI Sequence Viewer  
  P85108 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001102589   ⟸   NM_001109119
- UniProtKB: P85108 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000023611   ⟸   ENSRNOT00000023611
RefSeq Acc Id: ENSRNOP00000071729   ⟸   ENSRNOT00000086264
RefSeq Acc Id: ENSRNOP00000093166   ⟸   ENSRNOT00000099483
RefSeq Acc Id: ENSRNOP00000023582   ⟸   ENSRNOT00000023582

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P85108-F1-model_v2 AlphaFold P85108 1-445 view protein structure

Transcriptome

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

Promoters
RGD ID:13700420
Promoter ID:EPDNEW_R10936
Type:single initiation site
Name:Tubb2a_1
Description:tubulin, beta 2A class IIa
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_6.01731,493,144 - 31,493,204EPDNEW

Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
17 31494983 31494984 G A snv BN-Lx/CubMcwi (2019), BN/NHsdMcwi (2020), BN/SsN (2020), F344/NCrl (2019), F344/Stm (2019), SS/JrHsdMcwi (2019), LEXF3/Stm (2020), LL/MavRrrcAek (2020), M520/NRrrcMcwi (2019), SR/JrHsd (2020), FXLE18/Stm (2020)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1588452 AgrOrtholog
BioCyc Gene G2FUF-9600 BioCyc
Ensembl Genes ENSRNOG00000017558 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000023611 UniProtKB/Swiss-Prot
  ENSRNOP00000071729 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000023611 UniProtKB/Swiss-Prot
  ENSRNOT00000086264 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.287.600 UniProtKB/Swiss-Prot
  3.30.1330.20 UniProtKB/Swiss-Prot
  3.40.50.1440 UniProtKB/Swiss-Prot
InterPro Beta-tubulin_BS UniProtKB/Swiss-Prot
  Beta_tubulin UniProtKB/Swiss-Prot
  Tub_FtsZ_C UniProtKB/Swiss-Prot
  Tubulin UniProtKB/Swiss-Prot
  Tubulin/FtsZ_2-layer-sand-dom UniProtKB/Swiss-Prot
  Tubulin/FtsZ_C_sf UniProtKB/Swiss-Prot
  Tubulin/FtsZ_GTPase_sf UniProtKB/Swiss-Prot
  Tubulin_C UniProtKB/Swiss-Prot
  Tubulin_CS UniProtKB/Swiss-Prot
  Tubulin_FtsZ_GTPase UniProtKB/Swiss-Prot
KEGG Report rno:498736 UniProtKB/Swiss-Prot
NCBI Gene 498736 ENTREZGENE
PANTHER PTHR11588 UniProtKB/Swiss-Prot
Pfam Tubulin UniProtKB/Swiss-Prot
  Tubulin_C UniProtKB/Swiss-Prot
PhenoGen Tubb2a PhenoGen
PRINTS BETATUBULIN UniProtKB/Swiss-Prot
  TUBULIN UniProtKB/Swiss-Prot
PROSITE TUBULIN UniProtKB/Swiss-Prot
  TUBULIN_B_AUTOREG UniProtKB/Swiss-Prot
SMART Tubulin UniProtKB/Swiss-Prot
  Tubulin_C UniProtKB/Swiss-Prot
Superfamily-SCOP SSF52490 UniProtKB/Swiss-Prot
  SSF55307 UniProtKB/Swiss-Prot
UniProt P85108 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Tubb2a  tubulin, beta 2A class IIa  LOC108348176  tubulin beta-2A chain pseudogene  Data Merged 737654 PROVISIONAL
2016-08-02 LOC108348176  tubulin beta-2A chain pseudogene      Symbol and Name status set to provisional 70820 PROVISIONAL
2011-10-19 Tubb2a  tubulin, beta 2A class IIa  Tubb2a  tubulin, beta 2A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-10-12 Tubb2a  tubulin, beta 2A  Tubb2a  tubulin, beta 2A class IIa  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-10-10 Tubb2a  tubulin, beta 2A class IIa  Tubb2a  tubulin, beta 2a  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-05 Tubb2a  tubulin, beta 2a  LOC498736  similar to tubulin, beta 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC498736  similar to tubulin, beta 2      Symbol and Name status set to provisional 70820 PROVISIONAL