Tubb4a (tubulin, beta 4A class IVa)

Gene: Tubb4a (tubulin, beta 4A class IVa) Rattus norvegicus

Analyze

Symbol:

Tubb4a

Name:

tubulin, beta 4A class IVa

RGD ID:

619730

Description:

Predicted to enable GTP binding activity and calcium ion binding activity. Predicted to be a structural constituent of cytoskeleton. Predicted to be involved in microtubule cytoskeleton organization; mitotic cell cycle; and negative regulation of microtubule polymerization. Predicted to be located in several cellular components, including cytoskeleton; internode region of axon; and neuronal cell body. Predicted to be active in cytoplasm and microtubule. Used to study demyelinating disease. Human ortholog(s) of this gene implicated in hypomyelinating leukodystrophy 6 and torsion dystonia 4. Orthologous to human TUBB4A (tubulin beta 4A class IVa); INTERACTS WITH 1-naphthyl isothiocyanate; 2,3,7,8-Tetrachlorodibenzofuran; 6-propyl-2-thiouracil.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

Tubb4; tubulin beta-4A chain; tubulin, beta 4; tubulin, beta 4 class IVa

RGD Orthologs

Alliance Orthologs

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	TUBB4A (tubulin beta 4A class IVa)	RGD	RGD
Mus musculus (house mouse):	Tubb4a (tubulin, beta 4A class IVA)	RGD	RGD
Chinchilla lanigera (long-tailed chinchilla):	Tubb4a (tubulin beta 4A class IVa)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	TUBB4A (tubulin beta 4A class IVa)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	TUBB4A (tubulin beta 4A class IVa)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Tubb4a (tubulin beta 4A class IVa)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	TUBB4A (tubulin beta 4A class IVa)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	TUBB4A (tubulin beta 4A class IVa)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Tubb4a (tubulin beta 4A class IVa)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	TUBB6 (tubulin beta 6 class V)	HGNC	OrthoDB
Homo sapiens (human):	TUBB3 (tubulin beta 3 class III)	HGNC	OrthoDB
Homo sapiens (human):	TUBB2A (tubulin beta 2A class IIa)	HGNC	OrthoDB
Homo sapiens (human):	TUBB4B (tubulin beta 4B class IVb)	HGNC	OrthoDB
Homo sapiens (human):	TUBB2B (tubulin beta 2B class IIb)	HGNC	OrthoDB
Alliance orthologs ³
Mus musculus (house mouse):	Tubb4a (tubulin, beta 4A class IVA)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Homo sapiens (human):	TUBB4A (tubulin beta 4A class IVa)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	tubb2b (tubulin, beta 2b)	Alliance	DIOPT (OMA\|OrthoFinder\|PANTHER)
Danio rerio (zebrafish):	zgc:55461	Alliance	DIOPT (OMA\|OrthoFinder\|PANTHER)
Danio rerio (zebrafish):	tubb4b (tubulin, beta 4B class IVb)	Alliance	DIOPT (OMA\|OrthoFinder\|PANTHER)
Caenorhabditis elegans (roundworm):	ben-1	Alliance	DIOPT (Ensembl Compara\|OMA\|PANTHER)
Saccharomyces cerevisiae (baker's yeast):	TUB2	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	mec-7	Alliance	DIOPT (OMA\|OrthoFinder\|PANTHER)
Drosophila melanogaster (fruit fly):	betaTub56D	Alliance	DIOPT (InParanoid\|PANTHER\|SonicParanoid)
Caenorhabditis elegans (roundworm):	tbb-1	Alliance	DIOPT (Ensembl Compara\|OMA\|PANTHER)
Caenorhabditis elegans (roundworm):	tbb-4	Alliance	DIOPT (InParanoid\|OMA\|PANTHER\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	tubb4a	Alliance	DIOPT (OMA\|OrthoFinder\|PANTHER)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	9	2,004,836 - 2,012,281 (-)	NCBI		GRCr8
mRatBN7.2	9	1,917,841 - 1,925,286 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	9	1,917,845 - 1,925,291 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	9	2,351,879 - 2,359,326 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	9	7,701,246 - 7,708,694 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	9	6,657,095 - 6,664,543 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	9	9,961,020 - 9,968,420 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	9	9,961,021 - 9,968,486 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	9	8,960,772 - 8,968,172 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	9	6,592,438 - 6,599,882 (+)	NCBI		Celera
Cytogenetic Map	9	q11	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

autosomal recessive nonsyndromic deafness 9 (ISO)

BROWN SYNDROME (ISO)

cerebral palsy (ISO)

demyelinating disease (IAGP)

Developmental Disabilities (ISO)

dystonia (ISO)

genetic disease (ISO)

hypomyelinating leukodystrophy 6 (ISO,ISS)

medulloblastoma (ISO)

microcephaly (ISO)

mucolipidosis type IV (ISO)

Nervous System Malformations (ISO)

torsion dystonia 4 (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(S)-nicotine (ISO)

1,2-dimethylhydrazine (ISO)

1-naphthyl isothiocyanate (EXP)

17beta-estradiol (ISO)

17beta-hydroxy-5alpha-androstan-3-one (ISO)

2,3,7,8-tetrachlorodibenzodioxine (ISO)

2,3,7,8-Tetrachlorodibenzofuran (EXP)

2-methoxy-17beta-estradiol (ISO)

3,3',5,5'-tetrabromobisphenol A (ISO)

6-propyl-2-thiouracil (EXP)

acrolein (EXP)

acrylamide (ISO)

all-trans-retinoic acid (ISO)

ammonium chloride (EXP)

aristolochic acid A (ISO)

Aroclor 1254 (ISO)

arsenite(3-) (ISO)

atrazine (ISO)

beauvericin (ISO)

benzo[a]pyrene (ISO)

bis(2-ethylhexyl) phthalate (EXP,ISO)

bisphenol A (EXP,ISO)

buta-1,3-diene (ISO)

Butylbenzyl phthalate (EXP)

carbon nanotube (ISO)

diallyl disulfide (ISO)

diazinon (ISO)

dibutyl phthalate (EXP)

diethyl phthalate (EXP)

diethylstilbestrol (ISO)

diisobutyl phthalate (EXP)

diisononyl phthalate (EXP)

disodium selenite (ISO)

dorsomorphin (ISO)

doxorubicin (ISO)

enniatin (ISO)

entinostat (ISO)

epoxiconazole (ISO)

ethanol (ISO)

ethylparaben (ISO)

folic acid (ISO)

FR900359 (ISO)

glyphosate (ISO)

ivermectin (ISO)

lipopolysaccharide (ISO)

morphine (ISO)

N-methyl-4-phenylpyridinium (ISO)

naphthalene (ISO)

nicotine (ISO)

Nor-9-carboxy-delta9-THC (ISO)

ozone (ISO)

paracetamol (ISO)

pirinixic acid (ISO)

poly(propylene imine) macromolecule (ISO)

resveratrol (ISO)

rotenone (ISO)

S-(1,2-dichlorovinyl)-L-cysteine (ISO)

SB 431542 (ISO)

silicon dioxide (EXP)

sodium fluoride (ISO)

sulforaphane (ISO)

sunitinib (ISO)

thapsigargin (ISO)

titanium dioxide (ISO)

trichloroethene (EXP)

trichostatin A (ISO)

trimellitic anhydride (ISO)

triptonide (ISO)

tunicamycin (ISO)

valproic acid (ISO)

zinc sulfate (ISO)

zoledronic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

microtubule cytoskeleton organization (IBA)

mitotic cell cycle (IBA)

negative regulation of microtubule polymerization (ISO)

Cellular Component

axoneme (ISO)

cell projection (ISO)

cilium (ISO)

cytoplasm (IBA,ISO)

intercellular bridge (ISO)

internode region of axon (ISO)

microtubule (IBA,ISO)

microtubule cytoskeleton (ISO)

mitotic spindle (ISO)

myelin sheath (ISO)

neuronal cell body (ISO)

Molecular Function

calcium ion binding (ISO)

GTP binding (IBA)

GTPase activity (IEA)

metal ion binding (IEA)

protein binding (IPI,ISO)

structural constituent of cytoskeleton (IBA)

Phenotype Annotations Click to see Annotation Detail View

Mammalian Phenotype

demyelination (IAGP)

tremors (IAGP)

References

References - curated

#	Reference Title	Reference Citation
1.	Differential distribution of beta-tubulin isotypes in cerebellum.	Burgoyne RD, etal., EMBO J 1988 Aug;7(8):2311-9.
2.	A mutation in the Tubb4a gene leads to microtubule accumulation with hypomyelination and demyelination.	Duncan ID, etal., Ann Neurol. 2017 May;81(5):690-702. doi: 10.1002/ana.24930. Epub 2017 May 9.
3.	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.
4.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
5.	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.
6.	Electronic Transfer of LocusLink and RefSeq Data	NCBI rat LocusLink and RefSeq merged data July 26, 2002
7.	OMIM Disease Annotation Pipeline	OMIM Disease Annotation Pipeline
8.	GOA pipeline	RGD automated data pipeline
9.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
10.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:10211825	PMID:11724907	PMID:12475942	PMID:12477932	PMID:14625387	PMID:15277470	PMID:16421295	PMID:16574095	PMID:17634366	PMID:21525035	PMID:21630459	PMID:23106098
PMID:23284756	PMID:23533145	PMID:24625528	PMID:25931508

Genomics

Comparative Map Data

Tubb4a
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	9	2,004,836 - 2,012,281 (-)	NCBI		GRCr8
mRatBN7.2	9	1,917,841 - 1,925,286 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	9	1,917,845 - 1,925,291 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	9	2,351,879 - 2,359,326 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	9	7,701,246 - 7,708,694 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	9	6,657,095 - 6,664,543 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	9	9,961,020 - 9,968,420 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	9	9,961,021 - 9,968,486 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	9	8,960,772 - 8,968,172 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	9	6,592,438 - 6,599,882 (+)	NCBI		Celera
Cytogenetic Map	9	q11	NCBI

TUBB4A
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	19	6,494,319 - 6,502,848 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	19	6,494,319 - 6,502,848 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	19	6,494,330 - 6,502,859 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	19	6,445,330 - 6,453,330 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	19	6,445,329 - 6,453,330	NCBI
Celera	19	6,434,150 - 6,442,152 (-)	NCBI		Celera
Cytogenetic Map	19	p13.3	NCBI
HuRef	19	6,257,064 - 6,265,066 (-)	NCBI		HuRef
CHM1_1	19	6,493,927 - 6,501,914 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	19	6,483,817 - 6,492,345 (-)	NCBI		T2T-CHM13v2.0

Tubb4a
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	17	57,387,061 - 57,394,600 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	17	57,387,066 - 57,394,782 (-)	Ensembl		GRCm39 Ensembl
GRCm38	17	57,080,061 - 57,087,600 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	17	57,080,066 - 57,087,782 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	17	57,219,489 - 57,227,205 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	17	56,765,319 - 56,772,683 (-)	NCBI		MGSCv36	mm8
Celera	17	61,427,986 - 61,435,703 (-)	NCBI		Celera
Cytogenetic Map	17	D	NCBI
cM Map	17	29.66	NCBI

Tubb4a
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955495	3,133,429 - 3,139,552 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955495	3,134,181 - 3,138,725 (+)	NCBI	ChiLan1.0	ChiLan1.0

TUBB4A
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	20	10,901,916 - 10,910,445 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	19	10,127,833 - 10,136,362 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	19	5,521,425 - 5,529,958 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	19	6,443,913 - 6,451,785 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	19	6,441,323 - 6,451,785 (-)	Ensembl	panpan1.1		panPan2

TUBB4A
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	20	53,697,643 - 53,702,671 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	20	53,697,639 - 53,702,349 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	20	53,444,670 - 53,449,928 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	20	54,351,606 - 54,356,870 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	20	54,351,274 - 54,356,867 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	20	53,418,321 - 53,423,724 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	20	53,866,868 - 53,871,927 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	20	54,095,881 - 54,101,133 (+)	NCBI		UU_Cfam_GSD_1.0

Tubb4a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405118	214,008,052 - 214,013,612 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936588	3,821,110 - 3,826,940 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936588	3,821,171 - 3,826,827 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

TUBB4A
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	2	72,599,140 - 72,605,361 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	2	72,599,244 - 72,605,362 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	2	73,063,925 - 73,085,100 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

TUBB4A
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	6	6,104,265 - 6,111,966 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	6	6,094,130 - 6,111,762 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666081	1,895,229 - 1,903,320 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Tubb4a
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624828	3,584,848 - 3,594,294 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624828	3,588,001 - 3,594,294 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Tubb4a
20 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	71
Count of miRNA genes:	60
Interacting mature miRNAs:	64
Transcripts:	ENSRNOT00000075767
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 (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
10054141	Gmadr4	Adrenal mass QTL 4	2.45	0.0074	adrenal gland mass (VT:0010420)	both adrenal glands wet weight (CMO:0000164)	9	1	14209783	Rat
70226	Eae4	Experimental allergic encephalomyelitis QTL 4			nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)	9	1	25661317	Rat
9589055	Scfw5	Subcutaneous fat weight QTL 5	5.55	0.001	subcutaneous adipose mass (VT:1000472)	abdominal subcutaneous fat pad weight (CMO:0002069)	9	1	37999212	Rat
7411592	Foco8	Food consumption QTL 8	7.4	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	9	1	37999212	Rat
9589158	Gluco65	Glucose level QTL 65	6.82	0.001	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	9	1	37999212	Rat
1300124	Cm4	Cardiac mass QTL 4	3.55		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	9	1	40594091	Rat
1298088	Edpm11	Estrogen-dependent pituitary mass QTL 11	2.5		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	9	1	43718459	Rat
1641911	Alcrsp13	Alcohol response QTL 13			response to alcohol trait (VT:0010489)	brain neurotensin receptor 1 density (CMO:0002068)	9	1	43718459	Rat
10054125	Srcrt7	Stress Responsive Cort QTL 7	3.33	0.0011	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	9	1	87073594	Rat
1331757	Cdexp1	CD45RC expression in CD8 T cells QTL 1	4.3		CD8-positive T cell quantity (VT:0008077)	blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)	9	1024537	67509080	Rat
1354650	Despr5	Despair related QTL 5	4.01	0.0017	locomotor behavior trait (VT:0001392)	amount of time spent in voluntary immobility (CMO:0001043)	9	1254084	46254084	Rat
2303559	Gluco54	Glucose level QTL 54	2		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	9	1254084	46254084	Rat

Markers in Region

SGC32809

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	9	1,918,642 - 1,918,775 (-)	MAPPER	mRatBN7.2
Rnor_6.0	9	9,967,486 - 9,967,618	NCBI	Rnor6.0
Rnor_5.0	9	8,967,238 - 8,967,370	UniSTS	Rnor5.0
Celera	9	6,598,948 - 6,599,080	UniSTS

RH137126

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	9	1,917,838 - 1,918,041 (-)	MAPPER	mRatBN7.2
Rnor_6.0	9	9,968,220 - 9,968,422	NCBI	Rnor6.0
Rnor_5.0	9	8,967,972 - 8,968,174	UniSTS	Rnor5.0
Celera	9	6,599,682 - 6,599,884	UniSTS

MARC_24021-24022:1029778648:1

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	19	51,465,188 - 51,465,794 (+)	MAPPER	mRatBN7.2
mRatBN7.2	9	1,918,543 - 1,919,149 (-)	MAPPER	mRatBN7.2
Rnor_6.0	9	9,967,112 - 9,967,717	NCBI	Rnor6.0
Rnor_6.0	19	56,228,759 - 56,229,364	NCBI	Rnor6.0
Rnor_5.0	9	8,966,864 - 8,967,469	UniSTS	Rnor5.0
Rnor_5.0	19	66,939,876 - 66,940,481	UniSTS	Rnor5.0
RGSC_v3.4	19	53,750,652 - 53,751,257	UniSTS	RGSC3.4
Celera	19	50,697,659 - 50,698,264	UniSTS
Celera	9	6,598,574 - 6,599,179	UniSTS
Cytogenetic Map	19	q12	UniSTS

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									7
Medium									67	12	14
Low	3	26	26	10	19	10	7	8		22	27	11	7
Below cutoff		17	31	31		31	1	3		1			1

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_080882	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AB062422	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC168216	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CB740167	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CB774680	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CF978144	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474092	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CO395990	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CO561872	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	DV728977	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	DY315612	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000009	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000075767 ⟹ ENSRNOP00000065633

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	9	1,917,845 - 1,925,291 (-)	Ensembl
Rnor_6.0 Ensembl	9	9,961,021 - 9,968,486 (+)	Ensembl

RefSeq Acc Id:

NM_080882 ⟹ NP_543158

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	9	2,004,836 - 2,012,281 (-)	NCBI
mRatBN7.2	9	1,917,841 - 1,925,286 (-)	NCBI
Rnor_6.0	9	9,961,020 - 9,968,420 (+)	NCBI
Rnor_5.0	9	8,960,772 - 8,968,172 (+)	NCBI
Celera	9	6,592,438 - 6,599,882 (+)	RGD

Sequence:

show sequence

ATAGAGACGCCCGGGGGCGCAGAGACAGAGCTCTGCAGCCATCTCCTCCAGAGACGGAACCACA
GCGACCGGTTGACACCCGTCCATCAGCCGCCACCAGCAGCACCCCCATCATGCGGGAAATCGTG
CACCTGCAAGCCGGGCAATGCGGCAACCAGATCGGGGCCAAGTTCTGGGAGGTCATCAGTGATG
AGCATGGCATCGACCCCACTGGGACCTATCATGGGGACAGTGACCTCCAGCTGGAGAGAATTAA
TGTCTACTACAACGAGGCCACAGGTGGAAATTATGTTCCCAGAGCCGTGCTGGTTGACCTAGAA
CCTGGCACCATGGACTCCGTCCGCTCTGGCCCTTTTGGCCAGATCTTCCGGCCAGACAACTTTG
TGTTTGGTCAATCTGGAGCAGGCAACAACTGGGCCAAGGGTCATTACACTGAGGGCGCAGAGTT
AGTGGATGCAGTCCTGGACGTGGTGCGCAAAGAGGCTGAAAGCTGCGACTGTCTCCAGGGCTTC
CAGCTCACCCACTCGCTCGGAGGTGGCACAGGCTCAGGGATGGGGACCTTGCTCATCAGCAAGA
TCCGGGAGGAGTTCCCAGACAGGATCATGAATACGTTCAGCGTAGTGCCATCGCCCAAGGTGTC
TGACACGGTGGTGGAACCCTACAATGCCACACTGTCTGTGCATCAACTGGTGGAGAACACTGAT
GAGACCTACTGTATCGACAATGAGGCCTTGTACGACATCTGCTTCCGCACTCTCAAGCTGACCA
CGCCCACCTACGGGGACCTCAACCACCTAGTGTCGGCCACCATGAGTGGGGTGACCACCTGCCT
GCGCTTTCCCGGCCAGCTCAATGCAGATCTACGCAAGCTGGCTGTGAACATGGTGCCGTTCCCC
CGTCTCCACTTCTTCATGCCAGGATTCGCACCCTTGACCAGCAGGGGCAGCCAGCAGTACCGAG
CCCTCACCGTTCCTGAGCTGACCCAACAGATGTTCGATGCTAAGAACATGATGGCCGCGTGCGA
CCCGAGACACGGTCGCTACCTGACCGTGGCTGCTGTCTTCCGAGGACGGATGTCCATGAAGGAG
GTGGACGAGCAGATGCTAAGTGTGCAGAGCAAGAACAGCAGCTACTTCGTTGAGTGGATCCCCA
ACAACGTCAAGACAGCCGTGTGTGACATCCCACCCCGAGGCCTGAAGATGGCAGCCACCTTCAT
CGGCAATAGCACAGCCATCCAGGAGCTGTTCAAACGCATCTCAGAGCAGTTCACCGCCATGTTT
AGGCGCAAGGCCTTCCTGCATTGGTACACGGGTGAAGGCATGGACGAGATGGAGTTTACGGAAG
CAGAGAGCAATATGAACGACCTGGTGTCCGAGTACCAGCAGTATCAGGATGCCACGGCTGAAGA
GGGCGAGTTCGAAGAGGAGGCCGAAGAGGAGGTGGCTTAAGTCTTCAGCCATCGCTCTGCCCCC
GGGGCACACCAGCAAATCTTTGACCCTGAGCACCCCACCTCTGCACCCAGCTGCTCGTTCCCTT
GGATTCCGTGAGCATCTTCACCATGACGGCCAAGGCCAAAGCCCAGGTTGCTTCATCTGTTTCA
CCCTTAACTCCTAAACCCCTCTGTCTCTCCAACCGAGGCAGTTTCCATGAGAGCCCCCAACAGA
CACACACACACACACACACACACACACACACACACACACACACTCCACCTCCTTAAATCTTGAA
AAGCCTTTCTTTCATCCCCTATCCCTTCCCCAGCACTCCTGAATAGTTCTCCACCTCTGACACA
CTCAGACATTTCTCTAGATCTTGACTTAACCTTTTACCCAGCCTCCAAGCCCTCTCACTTTGCC
TTACCTCTGATCTCCCAGCTCCCCACTGCTGACCCAGCACCTTCACTCTGGCTCCCATAGGTCC
CTGTGTGTTCCTGCCCTTGTGCCTTAGTTAGTTCCTACCAGAGAAGTGCTGGAGAGGAAAGAGA
GGCCTATTGCCTGGGGTGAGAGAGCCCCTCCCTATGCACCCCACCCCGCTCTCCCCTGCAGACC
CTCCATCAATAAATGAGTCATTGCTTTGTTGTGAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_543158	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAI68216	(Get FASTA)	NCBI Sequence Viewer
	BAB72260	(Get FASTA)	NCBI Sequence Viewer
	EDL83577	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000065633
	ENSRNOP00000065633.1

RefSeq Acc Id:

NP_543158 ⟸ NM_080882

- UniProtKB:

Q6P9T8 (UniProtKB/Swiss-Prot), B4F7C2 (UniProtKB/TrEMBL), A6KQR9 (UniProtKB/TrEMBL), M0R843 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MREIVHLQAGQCGNQIGAKFWEVISDEHGIDPTGTYHGDSDLQLERINVYYNEATGGNYVPRAV
LVDLEPGTMDSVRSGPFGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELVDAVLDVVRKEAESCD
CLQGFQLTHSLGGGTGSGMGTLLISKIREEFPDRIMNTFSVVPSPKVSDTVVEPYNATLSVHQL
VENTDETYCIDNEALYDICFRTLKLTTPTYGDLNHLVSATMSGVTTCLRFPGQLNADLRKLAVN
MVPFPRLHFFMPGFAPLTSRGSQQYRALTVPELTQQMFDAKNMMAACDPRHGRYLTVAAVFRGR
MSMKEVDEQMLSVQSKNSSYFVEWIPNNVKTAVCDIPPRGLKMAATFIGNSTAIQELFKRISEQ
FTAMFRRKAFLHWYTGEGMDEMEFTEAESNMNDLVSEYQQYQDATAEEGEFEEEAEEEVA

hide sequence

RefSeq Acc Id:

ENSRNOP00000065633 ⟸ ENSRNOT00000075767

Protein Domains

Tubulin/FtsZ 2-layer sandwich Tubulin/FtsZ GTPase

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-B4F7C2-F1-model_v2	AlphaFold	B4F7C2	1-444	view protein structure

Transcriptome

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

Promoters

RGD ID:

13696438

Promoter ID:

EPDNEW_R6963

Type:

multiple initiation site

Name:

Tubb4a_1

Description:

tubulin, beta 4A class IVa

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	9	9,961,046 - 9,961,106	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:619730	AgrOrtholog
BioCyc Gene	G2FUF-28490	BioCyc
Ensembl Genes	ENSRNOG00000047505	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000075767	ENTREZGENE
	ENSRNOT00000075767.3	UniProtKB/TrEMBL
Gene3D-CATH	1.10.287.600	UniProtKB/TrEMBL
	3.30.1330.20	UniProtKB/TrEMBL
	3.40.50.1440	UniProtKB/TrEMBL
InterPro	Beta-tubulin_BS	UniProtKB/TrEMBL
	Beta_tubulin	UniProtKB/TrEMBL
	Tub_FtsZ_C	UniProtKB/TrEMBL
	Tubulin	UniProtKB/TrEMBL
	Tubulin/FtsZ_2-layer-sand-dom	UniProtKB/TrEMBL
	Tubulin/FtsZ_C_sf	UniProtKB/TrEMBL
	Tubulin/FtsZ_GTPase_sf	UniProtKB/TrEMBL
	Tubulin_C	UniProtKB/TrEMBL
	Tubulin_CS	UniProtKB/TrEMBL
	Tubulin_FtsZ_GTPase	UniProtKB/TrEMBL
KEGG Report	rno:29213	UniProtKB/TrEMBL
NCBI Gene	29213	ENTREZGENE
PANTHER	Tubulin	UniProtKB/TrEMBL
	TUBULIN BETA-4A CHAIN	UniProtKB/TrEMBL
Pfam	Tubulin	UniProtKB/TrEMBL
	Tubulin_C	UniProtKB/TrEMBL
PhenoGen	Tubb4a	PhenoGen
PRINTS	BETATUBULIN	UniProtKB/TrEMBL
	TUBULIN	UniProtKB/TrEMBL
PROSITE	TUBULIN	UniProtKB/TrEMBL
	TUBULIN_B_AUTOREG	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000047505	RatGTEx
SMART	Tubulin	UniProtKB/TrEMBL
	Tubulin_C	UniProtKB/TrEMBL
Superfamily-SCOP	Tub_FtsZ_C	UniProtKB/TrEMBL
	Tubulin_FtsZ	UniProtKB/TrEMBL
UniProt	A6KQR9	ENTREZGENE, UniProtKB/TrEMBL
	B4F7C2	ENTREZGENE
	M0R843	ENTREZGENE, UniProtKB/TrEMBL
	Q6P9T8	ENTREZGENE
UniProt Secondary	B4F7C2	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2011-10-19	Tubb4a	tubulin, beta 4A class IVa	Tubb4	tubulin, beta 4	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2011-10-12	Tubb4	tubulin, beta 4	Tubb4a	tubulin, beta 4A class IVa	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2011-10-11	Tubb4	tubulin, beta 4A class IVa	Tubb4a	tubulin, beta 4 class IVa	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2011-10-11	Tubb4a	tubulin, beta 4A class IVa	Tubb4	tubulin, beta 4A class IVa	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2011-10-10	Tubb4a	tubulin, beta 4 class IVa	Tubb4	tubulin, beta 4	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-01-20	Tubb4	tubulin, beta 4			Symbol and Name status set to approved	1299863	APPROVED
2002-08-07	Tubb4	tubulin, beta 4			Symbol and Name status set to provisional	70820	PROVISIONAL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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Imported Disease Annotations - MGI

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