EuRBPDB

Basic Information
Cancer Related Information

Description

RBPome

Literatures

Expression

Transcripts

Gene Model

Pathways

PPI

Orthologs

Gene Ontology

Description

Ensembl ID: ENSG00000188229 (Gene tree)
Gene ID: 10383
Gene Symbol: TUBB4B
Alias: Beta2|TUBB2C
Full Name: tubulin beta 4B class IVb
Gene Type: protein_coding
Species: Homo_sapiens
Status: confidence
Strand: Plus strand
Length: 2,495 bases
Position: chr9:137,241,213-137,243,707
Accession: 20771
RBP type: non-canonical RBP
Summary: (Tubulin Beta 4B Class IVb) is a Protein Coding gene. Diseases associated with TUBB4B include Leber Congenital Amaurosis With Early-Onset Deafness and Tubulin, Beta. Among its related pathways are Regulation of PLK1 Activity at G2/M Transition and Cooperation of Prefoldin and TriC/CCT in actin and tubulin folding. Gene Ontology (GO) annotations related to this gene include GTP binding and unfolded protein binding. An important paralog of this gene is TUBB4A.

RNA binding proteome (RBPome)

PID	Title	Method	Time	Author	Doi
30607034	Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)	OOPS & HEK293	2019 Jan 3	Queiroz RML	DOI: 10.1038/s41587-018-0001-2
30607034	Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)	OOPS & MCF10A	2019 Jan 3	Queiroz RML	DOI: 10.1038/s41587-018-0001-2
30607034	Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)	OOPS & U2OS	2019 Jan 3	Queiroz RML	DOI: 10.1038/s41587-018-0001-2

Literatures on RNA binding capacity

PID	Title	Article	Time	Author	Doi
23672475	Differentially expressed proteins in the skin mucus of Atlantic cod (Gadus morhua) upon natural infection with Vibrio anguillarum.	BMC Vet Res	2013 May 14	Rajan B	doi: 10.1186/1746-6148-9-103.

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000340384	TUBB4B-201	1637	-	ENSP00000341289	445 (aa)	-	P68371
ENST00000604929	TUBB4B-202	2035	-	-	- (aa)	-	-

Gene Model

Click here to download ENSG00000188229's gene model file

Pathways

Pathway ID	Pathway Name	Source
hsa04145	Phagosome	KEGG
hsa04540	Gap junction	KEGG
hsa05130	Pathogenic Escherichia coli infection	KEGG

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000188229's network

* RBP PPI network refers to all genes directly bind to RBP

Orthologs identified by RBPome

Ensembl ID	Gene Symbol	Coverage	Identiy	Ortholog	Gene Symbol	Coverage	Identiy	Species
ENSG00000188229	TUBB4B	99	94.344	WBGene00006538	tbb-4	96	95.785	Caenorhabditis_elegans
ENSG00000188229	TUBB4B	100	98.876	ENSDARG00000002344	tubb4b	100	98.876	Danio_rerio
ENSG00000188229	TUBB4B	100	100.000	ENSMUSG00000036752	Tubb4b	100	100.000	Mus_musculus
ENSG00000188229	TUBB4B	99	75.737	YFL037W	TUB2	93	77.049	Saccharomyces_cerevisiae

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0000086	G2/M transition of mitotic cell cycle	-	TAS	Process
GO:0000226	microtubule cytoskeleton organization	21873635.	IBA	Process
GO:0000278	mitotic cell cycle	21873635.	IBA	Process
GO:0003725	double-stranded RNA binding	21266579.	IDA	Function
GO:0003924	GTPase activity	-	IEA	Function
GO:0005200	structural constituent of cytoskeleton	21873635.	IBA	Function
GO:0005525	GTP binding	21873635.	IBA	Function
GO:0005576	extracellular region	-	TAS	Component
GO:0005634	nucleus	21630459.	HDA	Component
GO:0005737	cytoplasm	21873635.	IBA	Component
GO:0005829	cytosol	-	TAS	Component
GO:0005856	cytoskeleton	16130169.	TAS	Component
GO:0005874	microtubule	21873635.	IBA	Component
GO:0005874	microtubule	21525035.	IDA	Component
GO:0007017	microtubule-based process	21873635.	IBA	Process
GO:0010389	regulation of G2/M transition of mitotic cell cycle	-	TAS	Process
GO:0035578	azurophil granule lumen	-	TAS	Component
GO:0042267	natural killer cell mediated cytotoxicity	11120798.	NAS	Process
GO:0042288	MHC class I protein binding	11120798.	TAS	Function
GO:0043312	neutrophil degranulation	-	TAS	Process
GO:0051082	unfolded protein binding	11120798.	NAS	Function
GO:0070062	extracellular exosome	11487543.20458337.23533145.	HDA	Component
GO:0097711	ciliary basal body-plasma membrane docking	-	TAS	Process
GO:1903561	extracellular vesicle	24769233.	HDA	Component

Cancer associated literatures

PID	Title	Article	Time	Author	Doi
12927047	Beta class II tubulin predominates in normal and tumor breast tissues.	Breast Cancer Res	2003	Dozier JH	-
12037579	Occurrence of nuclear beta(II)-tubulin in cultured cells.	Cell Tissue Res	2002 May	Walss-Bass C	-
20872967	Up-regulation of hnRNP A1, Ezrin, tubulin β-2C and Annexin A1 in sentinel lymph nodes of colorectal cancer.	World J Gastroenterol	2010 Oct 7	He ZY	-
15548702	Nuclear betaII-tubulin associates with the activated notch receptor to modulate notch signaling.	Cancer Res	2004 Nov 15	Yeh TS	-

Differential Expression

Expression in 33 cancers

Mutations

Cancer	Chr	Position	Mutation Type	dbSNP	Protein-change	Allele Freq
ACC	chr9	137242405	Intron	novel		0.46
BLCA	chr9	137243679	3'UTR	novel		0.54
BLCA	chr9	137241343	5'UTR	novel		0.08
BLCA	chr9	137242500	Missense_Mutation	novel	Q94H	0.27
BLCA	chr9	137243294	Missense_Mutation	rs747212339	R359Q	0.24
BLCA	chr9	137243352	Missense_Mutation	NA	F378L	0.34
BRCA	chr9	137242578	Silent	novel	V120V	0.04
BRCA	chr9	137243534	Missense_Mutation	novel	E439G	0.1
BRCA	chr9	137243463	Missense_Mutation	NA	M415I	0.23
BRCA	chr9	137243500	Missense_Mutation	NA	A428T	0.3
BRCA	chr9	137243013	Missense_Mutation	novel	F265L	0.14
BRCA	chr9	137243606	3'UTR	novel		0.14
CESC	chr9	137242491	Splice_Region	novel		0.46
CESC	chr9	137242500	Missense_Mutation	novel	Q94H	0.41
CESC	chr9	137243079	Silent	rs772348490	P287P	0.38
CESC	chr9	137243293	Missense_Mutation	NA	R359W	0.46
CESC	chr9	137242428	Intron	novel		0.27
COAD	chr9	137242589	Missense_Mutation	NA	A124V	0.27
COAD	chr9	137242050	Intron	novel		0.35
COAD	chr9	137241338	5'UTR	novel		0.29
COAD	chr9	137243643	3'UTR	novel		0.28
COAD	chr9	137241382	Nonsense_Mutation	novel	Q8*	0.14
COAD	chr9	137241353	5'UTR	novel		0.52
COAD	chr9	137243074	Missense_Mutation	NA	V286M	0.3
COAD	chr9	137242657	Missense_Mutation	novel	M147V	0.21
COAD	chr9	137242602	Silent	novel	D128D	0.53
COAD	chr9	137243445	Silent	rs770443576	T409T	0.23
GBM	chr9	137243296	Missense_Mutation	novel	G360R	0.2
GBM	chr9	137243248	Missense_Mutation	novel	W344G	0.16
HNSC	chr9	137242548	Silent	rs148569376	A110A	0.3
HNSC	chr9	137243521	Missense_Mutation	novel	E435K	0.52
HNSC	chr9	137243079	Silent	rs772348490	P287P	0.54
KIRC	chr9	137242956	Silent	rs151064868	L246L	0.15
KIRC	chr9	137243636	3'UTR	novel		0.32
KIRC	chr9	137242908	Silent	NA	S230S	0.17
KIRP	chr9	137242580	Frame_Shift_Ins	novel	*E123Gfs3**	0.32
KIRP	chr9	137242937	Missense_Mutation	NA	L240P	0.51
LGG	chr9	137242989	Missense_Mutation	NA	M257I	0.12
LGG	chr9	137241810	Silent	NA	V49V	0.1
LGG	chr9	137242809	Silent	rs765513816	D197D	0.14
LGG	chr9	137243622	3'UTR	novel		0.38
LIHC	chr9	137242336	Intron	novel		0.36
LIHC	chr9	137243216	Missense_Mutation	NA	V333A	0.31
LUAD	chr9	137241995	Missense_Mutation	novel	I84N	0.37
LUAD	chr9	137241352	5'UTR	novel		0.2
LUAD	chr9	137242030	Intron	novel		0.19
LUAD	chr9	137243023	Missense_Mutation	novel	G269S	0.21
LUAD	chr9	137243419	Missense_Mutation	NA	E401Q	0.37
LUAD	chr9	137243502	Silent	NA	A428A	0.51
LUSC	chr9	137241345	5'UTR	rs556036177		0.83
LUSC	chr9	137242812	Silent	novel	E198E	0.24
LUSC	chr9	137243390	Frame_Shift_Del	novel	*R391Pfs25**	0.28
LUSC	chr9	137243391	Silent	novel	R391R	0.29
LUSC	chr9	137241346	5'UTR	novel		0.44
LUSC	chr9	137243079	Silent	novel	P287P	0.36
LUSC	chr9	137242421	Intron	novel		0.14
LUSC	chr9	137242747	Missense_Mutation	novel	D177H	0.27
LUSC	chr9	137243494	Missense_Mutation	novel	Q426E	0.05
LUSC	chr9	137243177	Missense_Mutation	NA	R320H	0.43
LUSC	chr9	137242619	Missense_Mutation	novel	Q134L	0.07
LUSC	chr9	137241777	Silent	novel	G38G	0.48
MESO	chr9	137243299	Silent	novel	L361L	0.25
OV	chr9	137243440	Missense_Mutation	NA	F408I	0.32
OV	chr9	137241325	5'UTR	rs768000535		0.35
READ	chr9	137241387	Silent	novel	A9A	0.14
READ	chr9	137243436	Missense_Mutation	NA	M406I	0.27
SARC	chr9	137243104	Missense_Mutation	novel	A296T	0.1
SKCM	chr9	137242021	Missense_Mutation	NA	G93S	0.32
SKCM	chr9	137243349	Silent	novel	L377L	0.9
SKCM	chr9	137243526	Silent	novel	F436F	0.34
SKCM	chr9	137243560	3'UTR	rs762597920		0.26
SKCM	chr9	137243137	Missense_Mutation	rs762659681	H307Y	0.25
STAD	chr9	137243095	Missense_Mutation	NA	M293V	0.18
STAD	chr9	137243689	3'UTR	novel		0.09
STAD	chr9	137242638	Frame_Shift_Ins	novel	*T143Dfs26**	0.44
STAD	chr9	137242988	Missense_Mutation	NA	M257T	0.16
STAD	chr9	137243497	Missense_Mutation	NA	D427N	0.24
STAD	chr9	137241815	Missense_Mutation	NA	Y51C	0.35
THCA	chr9	137241343	5'UTR	novel		0.1
THCA	chr9	137242589	Missense_Mutation	NA	A124G	0.36
THCA	chr9	137241280	5'UTR	novel		0.33
UCEC	chr9	137243584	3'UTR	novel		0.29
UCEC	chr9	137242368	Intron	novel		0.29
UCEC	chr9	137241918	Missense_Mutation	novel	K58N	0.18
UCEC	chr9	137241939	Silent	novel	L65L	0.22
UCEC	chr9	137243592	3'UTR	novel		0.14
UCEC	chr9	137241964	Missense_Mutation	novel	D74N	0.25
UCEC	chr9	137243063	Missense_Mutation	novel	R282Q	0.32
UCEC	chr9	137243543	Missense_Mutation	novel	E442G	0.25
UCEC	chr9	137243334	Silent	rs760204112	T372T	0.38
UCEC	chr9	137243414	Missense_Mutation	NA	T399M	0.15
UCEC	chr9	137243664	3'UTR	rs780763306		0.46
UCEC	chr9	137243116	Missense_Mutation	novel	M300L	0.35
UCEC	chr9	137241988	Missense_Mutation	NA	G82W	0.26
UCEC	chr9	137242017	Silent	novel	V91V	0.17
UCEC	chr9	137243123	Missense_Mutation	novel	A302V	0.47
UCEC	chr9	137243092	Nonsense_Mutation	novel	Q292*	0.42
UCEC	chr9	137243080	Missense_Mutation	novel	E288K	0.37
UCEC	chr9	137242771	Missense_Mutation	NA	A185T	0.3
UCEC	chr9	137243177	Missense_Mutation	NA	R320H	0.37
UCEC	chr9	137243390	Missense_Mutation	novel	R391H	0.4
UCEC	chr9	137243161	Missense_Mutation	novel	A315T	0.32

Copy Number Variations (CNVs)

Cancer	Type	Freq	Q-value
BRCA	DEL	0.1972	0.070727
ESCA	AMP	0.2772	0.24147
LAML	DEL	0.0105	0.24147
LGG	AMP	0.0721	0.21332
LIHC	DEL	0.2486	0.12467
OV	DEL	0.4974	2.9521e-06
SARC	DEL	0.2218	0.00032085
STAD	AMP	0.2132	0.0047873
THCA	DEL	0.0401	0.24038
THYM	DEL	0.0163	0.022012
UCS	DEL	0.5893	0.089783

Survival Analysis

Cancer	P-value	Q-value
THYM	0.035	Kaplan-Meier Survival Analysis
STAD	0.0086	Kaplan-Meier Survival Analysis
ACC	0.0001	Kaplan-Meier Survival Analysis
UCS	0.0076	Kaplan-Meier Survival Analysis
SKCM	0.0001	Kaplan-Meier Survival Analysis
TGCT	0.047	Kaplan-Meier Survival Analysis
CESC	0.0035	Kaplan-Meier Survival Analysis
LAML	0.011	Kaplan-Meier Survival Analysis
UCEC	0.00011	Kaplan-Meier Survival Analysis
GBM	0.032	Kaplan-Meier Survival Analysis
LIHC	0.0083	Kaplan-Meier Survival Analysis
LGG	0.0001	Kaplan-Meier Survival Analysis
THCA	0.014	Kaplan-Meier Survival Analysis

Drugs

EuRBPDB

Description

RBPome

Literatures

Expression

Transcripts

Gene Model

Pathways

PPI

Orthologs

Gene Ontology

Select Dataset :

Input Drug :

Input Cell Line :

Eesembl ID

Cell lines and drugs in GSE70138 or GSE92742