Tubb5 (tubulin, beta 5 class I) - Rat Genome Database

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Gene: Tubb5 (tubulin, beta 5 class I) Rattus norvegicus
Analyze
Symbol: Tubb5
Name: tubulin, beta 5 class I
RGD ID: 628596
Description: Enables GTPase activating protein binding activity and protein domain specific binding activity. Predicted to be involved in several processes, including flagellated sperm motility; microtubule cytoskeleton organization; and regulation of synapse organization. Predicted to act upstream of or within odontoblast differentiation and spindle assembly. Located in membrane raft. Part of protein-containing complex. Human ortholog(s) of this gene implicated in complex cortical dysplasia with other brain malformations 6 and congenital symmetric circumferential skin creases 1. Orthologous to human TUBB (tubulin beta class I); PARTICIPATES IN phagocytosis pathway; INTERACTS WITH (S)-colchicine; 1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane; 1-naphthyl isothiocyanate.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Tubb; tubulin beta-5 chain; tubulin, beta; tubulin, beta 5
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Candidate Gene For: Pur27 Pur30
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8202,917,577 - 2,921,726 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl202,917,539 - 2,921,726 (+)EnsemblGRCr8
mRatBN7.2202,912,779 - 2,916,928 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl202,912,778 - 2,916,940 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx202,964,208 - 2,968,352 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0202,969,189 - 2,973,333 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0202,995,550 - 2,999,694 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0203,422,448 - 3,426,420 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl203,422,461 - 3,426,371 (+)Ensemblrn6Rnor6.0
Rnor_5.0205,519,551 - 5,523,476 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4203,060,224 - 3,090,776 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera20338,700 - 342,843 (+)NCBICelera
RGSC_v3.1203,060,491 - 3,065,012 (+)NCBI
Cytogenetic Map20p12NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
(1->4)-beta-D-glucan  (ISO)
(S)-colchicine  (EXP)
(S)-nicotine  (ISO)
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (EXP,ISO)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP,ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (EXP)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4,6-trinitrotoluene  (EXP)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2,6-dimethoxyphenol  (ISO)
2-acetamidofluorene  (EXP)
2-hydroxypropanoic acid  (ISO)
2-methylcholine  (ISO)
2-nitrofluorene  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3,4-dihydrocoumarin  (ISO)
3-chloropropane-1,2-diol  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (EXP)
4-hydroxyphenyl retinamide  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
acrylamide  (EXP,ISO)
aflatoxin B1  (EXP)
all-trans-retinoic acid  (ISO)
amitrole  (EXP)
ammonium chloride  (EXP)
aniline  (ISO)
antirheumatic drug  (ISO)
apigenin  (ISO)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
azathioprine  (ISO)
beauvericin  (ISO)
benzatropine  (ISO)
benzo[a]pyrene  (EXP,ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[b]fluoranthene  (EXP)
beta-lapachone  (ISO)
beta-naphthoflavone  (ISO)
biochanin A  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
buspirone  (EXP)
cadmium acetate  (ISO)
cadmium dichloride  (ISO)
Calpeptin  (EXP)
cannabidiol  (ISO)
carbon nanotube  (ISO)
carmustine  (ISO)
chloropicrin  (ISO)
chlorpyrifos  (ISO)
choline  (EXP)
chromium(6+)  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
clobetasol  (ISO)
clofibrate  (ISO)
clozapine  (ISO)
cobalt dichloride  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
corticosterone  (EXP)
coumarin  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
cylindrospermopsin  (ISO)
DDE  (ISO)
dexamethasone  (EXP,ISO)
dibenz[a,h]anthracene  (EXP)
dibenzo[a,l]pyrene  (EXP)
Dibutyl phosphate  (ISO)
dibutyl phthalate  (ISO)
dichlorvos  (EXP)
diethylstilbestrol  (EXP)
dopamine  (EXP,ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
enniatin  (EXP,ISO)
Enterolactone  (ISO)
enzyme inhibitor  (ISO)
epoxiconazole  (ISO)
ethanol  (EXP,ISO)
fenoldopam  (EXP)
fenthion  (ISO)
fluoranthene  (EXP)
flutamide  (EXP)
folic acid  (EXP,ISO)
fulvestrant  (ISO)
fumonisin B1  (ISO)
furan  (EXP)
furfural  (ISO)
genistein  (ISO)
gentamycin  (EXP)
gold atom  (ISO)
gold(0)  (ISO)
GSK-J4  (ISO)
hyaluronic acid  (EXP)
hydrogen peroxide  (EXP)
indometacin  (EXP,ISO)
isoflavones  (ISO)
isoprenaline  (ISO)
ivermectin  (ISO)
L-methionine  (EXP)
lead(II) chloride  (ISO)
leflunomide  (EXP,ISO)
levofloxacin  (EXP)
lovastatin  (ISO)
maneb  (ISO)
melatonin  (ISO)
methamphetamine  (EXP)
methapyrilene  (EXP)
methidathion  (ISO)
methimazole  (EXP)
methyl methanesulfonate  (ISO)
miconazole  (ISO)
Monobutylphthalate  (ISO)
N(4)-hydroxycytidine  (ISO)
N-acetyl-beta-D-glucosamine  (ISO)
N-acetyl-D-glucosamine  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
N-nitrosodimethylamine  (EXP)
nicotine  (ISO)
nitrates  (ISO)
ochratoxin A  (EXP)
oxaliplatin  (EXP)
oxycodone  (EXP)
ozone  (ISO)
paclitaxel  (ISO)
palbociclib  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
pentachlorophenol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenobarbital  (ISO)
pinosylvin  (ISO)
piperonyl butoxide  (EXP)
pirinixic acid  (EXP,ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
progesterone  (ISO)
propiconazole  (ISO)
Propiverine  (EXP)
prostaglandin A1  (ISO)
quercetin  (ISO)
rac-lactic acid  (ISO)
resveratrol  (ISO)
rotenone  (EXP,ISO)
Salinomycin  (ISO)
selenium atom  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (EXP,ISO)
sodium chloride  (ISO)
sodium fluoride  (ISO)
sulfadimethoxine  (EXP)
sulfasalazine  (ISO)
sunitinib  (ISO)
T-2 toxin  (EXP)
tamoxifen  (ISO)
tetrachloromethane  (ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
trans-pinosylvin  (ISO)
triadimefon  (EXP)
Tributyltin oxide  (ISO)
trimellitic anhydride  (ISO)
triphenyl phosphate  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
trovafloxacin  (EXP)
tunicamycin  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
vincaleukoblastine  (EXP)
vinclozolin  (EXP)
vincristine  (EXP,ISO)
vitamin E  (ISO)
warfarin  (ISO)
withaferin A  (ISO)
zearalenone  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. 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.
2. RGS2 promotes formation of neurites by stimulating microtubule polymerization. Heo K, etal., Cell Signal. 2006 Dec;18(12):2182-92. Epub 2006 May 23.
3. Proteomic characterisation of neuronal sphingolipid-cholesterol microdomains: role in plasminogen activation. Ledesma MD, etal., Brain Res. 2003 Oct 10;987(1):107-16.
4. Synaptotagmin 11 interacts with components of the RNA-induced silencing complex RISC in clonal pancreatic beta-cells. Milochau A, etal., FEBS Lett. 2014 Jun 27;588(14):2217-22. doi: 10.1016/j.febslet.2014.05.031. Epub 2014 May 29.
5. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
6. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
7. Novel procedure to investigate the effect of phosphorylation on protein complex formation in vitro and in cells. Rembutsu M, etal., Biochemistry. 2008 Feb 19;47(7):2153-61. Epub 2008 Jan 26.
8. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
9. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
10. Comprehensive gene review and curation RGD comprehensive gene curation
11. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
12. Cloning and sequencing of the rat cDNAs encoding class I beta-tubulin. Usui H, etal., DNA Seq 1998;9(5-6):365-8.
Additional References at PubMed
PMID:11120798   PMID:11870213   PMID:12519789   PMID:15060004   PMID:15121885   PMID:15121898   PMID:15489334   PMID:16418269   PMID:16854843   PMID:18480465   PMID:19567321   PMID:19961433  
PMID:20387083   PMID:21362503   PMID:21525035   PMID:21630459   PMID:21753002   PMID:22082260   PMID:22309793   PMID:22871113   PMID:23178297   PMID:23533145   PMID:23979707   PMID:24833723  
PMID:25763846   PMID:25931508   PMID:26316108   PMID:29476059   PMID:35352799  


Genomics

Comparative Map Data
Tubb5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8202,917,577 - 2,921,726 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl202,917,539 - 2,921,726 (+)EnsemblGRCr8
mRatBN7.2202,912,779 - 2,916,928 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl202,912,778 - 2,916,940 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx202,964,208 - 2,968,352 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0202,969,189 - 2,973,333 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0202,995,550 - 2,999,694 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0203,422,448 - 3,426,420 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl203,422,461 - 3,426,371 (+)Ensemblrn6Rnor6.0
Rnor_5.0205,519,551 - 5,523,476 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4203,060,224 - 3,090,776 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera20338,700 - 342,843 (+)NCBICelera
RGSC_v3.1203,060,491 - 3,065,012 (+)NCBI
Cytogenetic Map20p12NCBI
TUBB
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38630,720,352 - 30,725,422 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl630,717,435 - 30,725,538 (+)Ensemblhg38GRCh38
GRCh37630,688,129 - 30,693,199 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36630,796,136 - 30,801,178 (+)NCBIBuild 36Build 36hg18NCBI36
Celera632,286,289 - 32,291,331 (+)NCBICelera
Cytogenetic Map6p21.33NCBI
HuRef630,488,105 - 30,493,147 (+)NCBIHuRef
CHM1_1630,690,286 - 30,695,330 (+)NCBICHM1_1
T2T-CHM13v2.0630,584,554 - 30,589,624 (+)NCBIT2T-CHM13v2.0
Tubb5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391736,144,812 - 36,149,193 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1736,144,813 - 36,149,198 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381735,833,920 - 35,838,301 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1735,833,921 - 35,838,306 (-)Ensemblmm10GRCm38
MGSCv371735,970,865 - 35,975,246 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361735,442,858 - 35,446,260 (-)NCBIMGSCv36mm8
Celera1739,343,980 - 39,348,363 (-)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1718.7NCBI
Tubb
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955583704,750 - 718,649 (+)Ensembl
ChiLan1.0NW_004955583704,811 - 715,742 (+)NCBIChiLan1.0ChiLan1.0
TUBB
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2545,280,026 - 45,285,423 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1641,243,801 - 41,248,269 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0630,465,367 - 30,470,451 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1631,333,985 - 31,339,739 (+)NCBIPanPan1.1PanPan1.1panPan2
TUBB
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.112512,738 - 517,154 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha12650,056 - 654,417 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.012655,875 - 660,238 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl12655,834 - 693,258 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.112513,860 - 518,216 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.012582,704 - 587,060 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.012651,287 - 655,647 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Tubb
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494634,015,619 - 34,019,493 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936837380,879 - 384,748 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936837380,880 - 384,752 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TUBB
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl723,247,736 - 23,252,240 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1723,247,827 - 23,252,240 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2726,969,793 - 26,974,207 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TUBB
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11741,728,103 - 41,733,206 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1741,729,143 - 41,733,243 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604430,417,844 - 30,423,077 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tubb
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475425,001,552 - 25,005,464 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462475425,001,555 - 25,005,459 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Tubb
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1189,048,115 - 9,051,599 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Tubb5
35 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:55
Count of miRNA genes:52
Interacting mature miRNAs:54
Transcripts:ENSRNOT00000001095
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2306850Pia40Pristane induced arthritis QTL 400.0001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2015332005306452Rat
61474Eae1Experimental allergic encephalomyelitis QTL 13nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)2016693431Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20126925056Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20133724594Rat
7387283Uae44Urinary albumin excretion QTL 440.1712urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)20126128279Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600300Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20153308346533083Rat
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124164241Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20134066551Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129193376Rat
70154Insul2Insulin level QTL 23.75blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)2016693431Rat
4889857Pur27Proteinuria QTL 2712.20.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20127341128Rat
724519Bp144Blood pressure QTL 1440.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2013629303Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129193376Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129193376Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129193376Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129193376Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20114100378Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127341128Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127341128Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578510Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600300Rat

Markers in Region
RH127649  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2202,915,964 - 2,916,146 (+)MAPPERmRatBN7.2
Rnor_6.0203,425,634 - 3,425,815NCBIRnor6.0
Rnor_5.0205,522,737 - 5,522,918UniSTSRnor5.0
RGSC_v3.4203,063,883 - 3,064,064UniSTSRGSC3.4
Celera20341,885 - 342,066UniSTS
RH 3.4 Map2052.12UniSTS
Cytogenetic Map20p12UniSTS
RH128120  
Rat AssemblyChrPosition (strand)SourceJBrowse
Celera20342,552 - 342,756UniSTS
RH 3.4 Map2052.52UniSTS
Cytogenetic Map20p12UniSTS
BI273785  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2202,915,964 - 2,916,138 (+)MAPPERmRatBN7.2
Rnor_6.0203,425,634 - 3,425,807NCBIRnor6.0
Rnor_5.0205,522,737 - 5,522,910UniSTSRnor5.0
RGSC_v3.4203,063,883 - 3,064,056UniSTSRGSC3.4
Celera20341,885 - 342,058UniSTS
RH 3.4 Map2053.33UniSTS
Cytogenetic Map20p12UniSTS
UniSTS:267009  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2202,915,857 - 2,916,059 (+)MAPPERmRatBN7.2
Rnor_6.0203,425,527 - 3,425,728NCBIRnor6.0
Rnor_5.0205,522,630 - 5,522,831UniSTSRnor5.0
RGSC_v3.4203,063,776 - 3,063,977UniSTSRGSC3.4
Celera20341,778 - 341,979UniSTS
Cytogenetic Map20p12UniSTS
PMC26660P4  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2202,915,579 - 2,915,897 (+)MAPPERmRatBN7.2
Rnor_6.0203,425,249 - 3,425,566NCBIRnor6.0
Rnor_5.0205,522,352 - 5,522,669UniSTSRnor5.0
RGSC_v3.4203,063,498 - 3,063,815UniSTSRGSC3.4
Celera20341,500 - 341,817UniSTS
Cytogenetic Map20p12UniSTS
Tubb5  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X33,327,476 - 33,327,680 (+)MAPPERmRatBN7.2
mRatBN7.2202,915,929 - 2,916,130 (+)MAPPERmRatBN7.2
Rnor_6.0X35,110,833 - 35,111,036NCBIRnor6.0
Rnor_6.0203,425,599 - 3,425,799NCBIRnor6.0
Rnor_5.0205,522,702 - 5,522,902UniSTSRnor5.0
Rnor_5.0X35,446,990 - 35,447,193UniSTSRnor5.0
Celera20341,850 - 342,050UniSTS
CeleraX33,613,160 - 33,613,363UniSTS
Cytogenetic Map20p12UniSTS


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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000079854   ⟹   ENSRNOP00000075269
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl202,912,778 - 2,916,940 (+)Ensembl
Rnor_6.0 Ensembl203,422,489 - 3,426,371 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000084917   ⟹   ENSRNOP00000072090
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl202,917,539 - 2,921,726 (+)Ensembl
mRatBN7.2 Ensembl202,912,795 - 2,916,940 (+)Ensembl
Rnor_6.0 Ensembl203,422,461 - 3,425,901 (+)Ensembl
RefSeq Acc Id: NM_173102   ⟹   NP_775125
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8202,917,577 - 2,921,726 (+)NCBI
mRatBN7.2202,912,779 - 2,916,928 (+)NCBI
Rnor_6.0203,422,448 - 3,426,420 (+)NCBI
Rnor_5.0205,519,551 - 5,523,476 (+)NCBI
RGSC_v3.4203,060,224 - 3,090,776 (+)RGD
Celera20338,700 - 342,843 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_775125 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH60540 (Get FASTA)   NCBI Sequence Viewer  
  BAA32736 (Get FASTA)   NCBI Sequence Viewer  
  CAE84031 (Get FASTA)   NCBI Sequence Viewer  
  EDL86739 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000072090
  ENSRNOP00000072090.2
GenBank Protein P69897 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_775125   ⟸   NM_173102
- UniProtKB: Q6P9T8 (UniProtKB/Swiss-Prot),   Q6P9X8 (UniProtKB/Swiss-Prot),   P69897 (UniProtKB/Swiss-Prot),   A6KT85 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000075269   ⟸   ENSRNOT00000079854
Ensembl Acc Id: ENSRNOP00000072090   ⟸   ENSRNOT00000084917
Protein Domains
Tubulin/FtsZ 2-layer sandwich   Tubulin/FtsZ GTPase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P69897-F1-model_v2 AlphaFold P69897 1-444 view protein structure

Transcriptome

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

Promoters
RGD ID:13701304
Promoter ID:EPDNEW_R11824
Type:initiation region
Name:Tubb5_1
Description:tubulin, beta 5 class I
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_6.0203,422,464 - 3,422,524EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:628596 AgrOrtholog
BioCyc Gene G2FUF-4777 BioCyc
Ensembl Genes ENSRNOG00000061216 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000084917 ENTREZGENE
  ENSRNOT00000084917.2 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:29214 UniProtKB/Swiss-Prot
NCBI Gene 29214 ENTREZGENE
PANTHER PTHR11588 UniProtKB/Swiss-Prot
Pfam Tubulin UniProtKB/Swiss-Prot
  Tubulin_C UniProtKB/Swiss-Prot
PharmGKB TUBB RGD
PhenoGen Tubb5 PhenoGen
PRINTS BETATUBULIN UniProtKB/Swiss-Prot
  TUBULIN UniProtKB/Swiss-Prot
PROSITE TUBULIN UniProtKB/Swiss-Prot
  TUBULIN_B_AUTOREG UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000061216 RatGTEx
SMART Tubulin UniProtKB/Swiss-Prot
  Tubulin_C UniProtKB/Swiss-Prot
Superfamily-SCOP SSF52490 UniProtKB/Swiss-Prot
  SSF55307 UniProtKB/Swiss-Prot
UniProt A6KT85 ENTREZGENE, UniProtKB/TrEMBL
  P69897 ENTREZGENE
  Q6P9T8 ENTREZGENE
  Q6P9X8 ENTREZGENE
  TBB5_RAT UniProtKB/Swiss-Prot
UniProt Secondary P05218 UniProtKB/Swiss-Prot
  Q6P9X8 UniProtKB/Swiss-Prot
  Q8WUC1 UniProtKB/Swiss-Prot
  Q9CY33 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-10-19 Tubb5  tubulin, beta 5 class I  Tubb  tubulin, beta  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-10-12 Tubb  tubulin, beta  Tubb5  tubulin, beta 5 class I  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-10-10 Tubb5  tubulin, beta 5 class I  Tubb5  tubulin, beta 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Tubb5  tubulin, beta 5      Symbol and Name status set to approved 1299863 APPROVED
2003-02-27 Tubb5  tubulin, beta 5      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression mRNA downregulated during brain development 727284