EuRBPDB

Basic Information
Cancer Related Information

Description

RBPome

Literatures

Expression

Transcripts

Gene Model

Pathways

Phenotypes

GWAS

PPI

Orthologs

Gene Ontology

Description

Ensembl ID: ENSG00000167553 (Gene tree)
Gene ID: 84790
Gene Symbol: TUBA1C
Alias: MGC14580|MGC10851|bcm948|TUBA6
Full Name: tubulin alpha 1c
Gene Type: protein_coding
Species: Homo_sapiens
Status: confidence
Strand: Plus strand
Length: 85,868 bases
Position: chr12:49,188,736-49,274,603
Accession: 20768
RBP type: non-canonical RBP
Summary: (Tubulin Alpha 1c) is a Protein Coding gene. Diseases associated with TUBA1C include Distal Hereditary Motor Neuropathy, Type Ii. Among its related pathways are Cooperation of Prefoldin and TriC/CCT in actin and tubulin folding and Regulation of CFTR activity (norm and CF). Gene Ontology (GO) annotations related to this gene include GTP binding and structural molecule activity. An important paralog of this gene is TUBA1A.

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
30528433	The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest	XRNAX & HEK293	2018 Dec 6	Trendel J	DOI: 10.1016/j.cell.2018.11.004
30528433	The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest	XRNAX & Hela	2018 Dec 6	Trendel J	DOI: 10.1016/j.cell.2018.11.004
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
30528433	The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest	XRNAX & MCF7	2018 Dec 6	Trendel J	DOI: 10.1016/j.cell.2018.11.004
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
30234379	Identify Cross Talk Between Circadian Rhythm and Coronary Heart Disease by Multiple Correlation Analysis.	J Comput Biol	2018 Dec	Yan X	doi: 10.1089/cmb.2017.0254

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000550574	TUBA1C-207	573	-	-	- (aa)	-	-
ENST00000548470	TUBA1C-203	1105	-	-	- (aa)	-	-
ENST00000301072	TUBA1C-201	3001	-	ENSP00000301072	449 (aa)	-	Q9BQE3
ENST00000549818	TUBA1C-206	536	-	ENSP00000447669	88 (aa)	-	F8VRK1
ENST00000552125	TUBA1C-208	575	-	ENSP00000447910	82 (aa)	-	H0YHV2
ENST00000541364	TUBA1C-202	1695	-	ENSP00000443475	519 (aa)	-	F5H5D3
ENST00000549183	TUBA1C-204	696	-	ENSP00000448211	130 (aa)	-	F8VS66
ENST00000549554	TUBA1C-205	560	-	-	- (aa)	-	-
ENST00000639419	TUBA1C-210	1075	-	ENSP00000492176	325 (aa)	-	A0A1W2PQM2
ENST00000552448	TUBA1C-209	1800	-	ENSP00000448646	88 (aa)	-	F8VRK1

Gene Model

Click here to download ENSG00000167553's gene model file

Pathways

Pathway ID	Pathway Name	Source
hsa04145	Phagosome	KEGG
hsa04210	Apoptosis	KEGG
hsa04530	Tight junction	KEGG
hsa04540	Gap junction	KEGG
hsa05130	Pathogenic Escherichia coli infection	KEGG

Phenotypes

ensgID	Trait	pValue	Pubmed ID
ENSG00000167553	Lipoprotein(a)	6.7670000E-005	-
ENSG00000167553	Prostatic Neoplasms	7E-12	21743467
ENSG00000167553	Prostatic Neoplasms	2E-6	26034056
ENSG00000167553	Prostatic Neoplasms	7E-8	26034056

GWAS

ensgID	SNP	Chromosome	Position	SNP-risk	Trait	PubmedID	95% CI	Or or BEAT	EFO ID
ENSG00000167553	rs11168936	12	49251457	C	Cancer (pleiotropy)	27197191			EFO_0001071\|EFO_1000650\|EFO_0005842\|EFO_1001515\|EFO_0001663\|EFO_1001516\|EFO_0000305\|EFO_0001075\|EFO_0000571\|EFO_0000708
ENSG00000167553	rs117557198	12	49262165	A	Total body bone mineral density	29304378	unit decrease	0.0769	EFO_0003923
ENSG00000167553	rs117557198	12	49262165	A	Total body bone mineral density	29304378	unit decrease	0.0887	EFO_0003923
ENSG00000167553	rs11168951	12	49267932	T	Intelligence (MTAG)	29326435	[0.019-0.039] unit increase	0.02875135	EFO_0004337
ENSG00000167553	rs11168951	12	49267932	T	Cognitive performance	30038396	[0.017-0.036] unit increase	0.0264	EFO_0008354
ENSG00000167553	rs11168951	12	49267932	T	Educational attainment (MTAG)	30038396	[0.0092-0.0178] unit increase	0.0135	EFO_0004784
ENSG00000167553	rs11168951	12	49267932	T	Cognitive performance (MTAG)	30038396	[0.015-0.03] unit increase	0.0228	EFO_0008354
ENSG00000167553	rs7958679	12	49268608	T	Platelet distribution width	27863252	[0.13-0.16] unit increase	0.144808	EFO_0007984
ENSG00000167553	rs11168951	12	49267932	T	General cognitive ability	29844566	z-score increase	5.565	EFO_0004337
ENSG00000167553	rs11168936	12	49251457	?	Reaction time	29844566	[0.0054-0.0124] unit increase	0.0089327	EFO_0008393
ENSG00000167553	rs113543437	12	49258948	?	Heel bone mineral density	30595370			EFO_0009270

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000167553'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
ENSG00000167553	TUBA1C	100	98.226	ENSDARG00000055216	tuba1c	99	99.539	Danio_rerio
ENSG00000167553	TUBA1C	100	99.332	ENSMUSG00000043091	Tuba1c	100	99.332	Mus_musculus
ENSG00000167553	TUBA1C	100	96.222	ENSMUSG00000067338	Tuba3b	100	96.222	Mus_musculus

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0000226	microtubule cytoskeleton organization	21873635.	IBA	Process
GO:0000278	mitotic cell cycle	21873635.	IBA	Process
GO:0003924	GTPase activity	-	IEA	Function
GO:0005198	structural molecule activity	12090300.	TAS	Function
GO:0005200	structural constituent of cytoskeleton	21873635.	IBA	Function
GO:0005515	protein binding	22720776.25556234.27107012.	IPI	Function
GO:0005525	GTP binding	21873635.	IBA	Function
GO:0005634	nucleus	21630459.	HDA	Component
GO:0005634	nucleus	22720776.	IDA	Component
GO:0005737	cytoplasm	21873635.	IBA	Component
GO:0005874	microtubule	21873635.	IBA	Component
GO:0005874	microtubule	12090300.	TAS	Component
GO:0007017	microtubule-based process	21873635.	IBA	Process
GO:0007017	microtubule-based process	12090300.	TAS	Process
GO:0015630	microtubule cytoskeleton	-	IDA	Component
GO:0030705	cytoskeleton-dependent intracellular transport	12090300.	TAS	Process
GO:0031982	vesicle	19190083.	HDA	Component
GO:0051301	cell division	12090300.	TAS	Process

Differential Expression

Expression in 33 cancers

Mutations

Cancer	Chr	Position	Mutation Type	dbSNP	Protein-change	Allele Freq
BLCA	chr12	49272967	Missense_Mutation	NA	P364T	0.61
BLCA	chr12	49272424	Nonsense_Mutation	novel	E183*	0.43
BRCA	chr12	49272898	Missense_Mutation	novel	I341F	0.3
BRCA	chr12	49272339	Missense_Mutation	NA	M154I	0.19
BRCA	chr12	49269681	Missense_Mutation	novel	V74I	0.11
BRCA	chr12	49272944	Missense_Mutation	novel	N356T	0.13
BRCA	chr12	49272990	Silent	NA	V371V	0.23
BRCA	chr12	49269643	Missense_Mutation	novel	H61R	0.09
BRCA	chr12	49273144	Missense_Mutation	NA	E423K	0.22
BRCA	chr12	49269553	Missense_Mutation	NA	Q31L	0.33
BRCA	chr12	49272501	In_Frame_Del	novel	Y210_I212del	0.07
CESC	chr12	49272861	Silent	novel	V328V	0.37
CESC	chr12	49272747	Silent	NA	E290E	0.2
CESC	chr12	49273162	Missense_Mutation	novel	E429Q	0.41
COAD	chr12	49273273	3'UTR	novel		0.42
COAD	chr12	49272866	Missense_Mutation	NA	A330V	0.3
COAD	chr12	49269963	Missense_Mutation	NA	R121Q	0.27
ESCA	chr12	49272712	Missense_Mutation	novel	E279K	0.25
GBM	chr12	49272290	Missense_Mutation	novel	F138Y	0.11
GBM	chr12	49265123	5'UTR	novel		0.24
GBM	chr12	49269543	Missense_Mutation	novel	H28N	0.21
GBM	chr12	49273047	Silent	novel	R390R	0.1
KIRC	chr12	49272999	Silent	NA	A374A	0.38
LIHC	chr12	49272771	Silent	NA	P298P	0.57
LUAD	chr12	49272944	Missense_Mutation	NA	N356S	0.1
LUAD	chr12	49272973	Nonsense_Mutation	novel	G366*	0.33
LUAD	chr12	49269659	Silent	rs749099041	V66V	0.22
LUAD	chr12	49273177	Missense_Mutation	novel	E434K	0.11
LUSC	chr12	49272346	Missense_Mutation	novel	L157F	0.17
LUSC	chr12	49273068	Silent	NA	L397L	0.45
LUSC	chr12	49273289	3'UTR	novel		0.44
LUSC	chr12	49272648	Silent	novel	T257T	0.2
LUSC	chr12	49272304	Missense_Mutation	novel	G143R	0.26
LUSC	chr12	49272259	Nonsense_Mutation	NA	Q128*	0.19
LUSC	chr12	49272780	Missense_Mutation	novel	Q301H	0.39
LUSC	chr12	49273023	Silent	novel	T382T	0.38
LUSC	chr12	49273319	3'UTR	novel		0.17
OV	chr12	49269477	Missense_Mutation	novel	S6A	0.11
OV	chr12	49272779	Missense_Mutation	novel	Q301L	0.05
OV	chr12	49265129	5'UTR	novel		0.1
OV	chr12	49272496	Missense_Mutation	novel	E207Q	0.05
OV	chr12	49265109	5'UTR	novel		0.63
OV	chr12	49269591	Missense_Mutation	rs763427275	G44R	0.14
PAAD	chr12	49269629	Frame_Shift_Del	novel	*G57Cfs19**	0.07
PAAD	chr12	49272789	Silent	novel	K304K	0.11
PRAD	chr12	49265133	5'UTR	novel		0.4
READ	chr12	49269968	Missense_Mutation	rs755278733	R123C	0.27
READ	chr12	49269843	Missense_Mutation	novel	G81D	0.55
READ	chr12	49269915	Missense_Mutation	NA	R105Q	0.28
READ	chr12	49272529	Missense_Mutation	rs780513922	D218N	0.4
SKCM	chr12	49273275	3'UTR	novel		0.44
SKCM	chr12	49269530	Silent	rs753086058	L23L	0.67
SKCM	chr12	49273259	3'UTR	novel		0.1
SKCM	chr12	49272274	Nonsense_Mutation	novel	Q133*	0.41
SKCM	chr12	49272268	Missense_Mutation	novel	G131S	0.14
SKCM	chr12	49272372	Silent	NA	S165S	0.58
SKCM	chr12	49272666	Silent	rs754273863	P263P	0.67
SKCM	chr12	49273097	Nonsense_Mutation	novel	W407*	0.11
SKCM	chr12	49265138	5'UTR	novel		0.52
SKCM	chr12	49269604	Missense_Mutation	novel	S48F	0.06
STAD	chr12	49265091	5'UTR	novel		0.22
STAD	chr12	49265091	5'UTR	novel		0.15
STAD	chr12	49272892	Missense_Mutation	rs756957516	R339C	0.31
TGCT	chr12	49269830	Missense_Mutation	novel	E77K	0.16
UCEC	chr12	49269836	Missense_Mutation	rs775004592	R79C	0.41
UCEC	chr12	49269968	Missense_Mutation	rs755278733	R123C	0.36
UCEC	chr12	49269890	Nonsense_Mutation	novel	E97*	0.29
UCEC	chr12	49272863	Missense_Mutation	rs551680115	N329S	0.29
UCEC	chr12	49273231	3'UTR	novel		0.39
UCEC	chr12	49269545	Silent	rs576580429	H28H	0.39
UCEC	chr12	49272460	Missense_Mutation	novel	L195M	0.41
UCEC	chr12	49272529	Missense_Mutation	rs780513922	D218N	0.24
UCEC	chr12	49273101	Silent	rs770139860	Y408Y	0.38
UCEC	chr12	49273252	3'UTR	rs759290493		0.25
UCEC	chr12	49265091	5'UTR	novel		0.44
UCEC	chr12	49272641	Missense_Mutation	novel	F255S	0.25
UCEC	chr12	49272892	Missense_Mutation	rs756957516	R339C	0.07
UCEC	chr12	49273110	Frame_Shift_Del	novel	*M413Wfs73**	0.43
UCEC	chr12	49272922	Missense_Mutation	NA	T349A	0.24
UCEC	chr12	49269496	Missense_Mutation	novel	A12V	0.25
UCEC	chr12	49272469	Missense_Mutation	NA	S198P	0.29

Copy Number Variations (CNVs)

Cancer	Type	Freq	Q-value
DLBC	AMP	0.1458	0.085003
READ	DEL	0.0545	0.064633
STAD	DEL	0.0884	0.22179

Survival Analysis

Cancer	P-value	Q-value
KIRC	0.0031	Kaplan-Meier Survival Analysis
SARC	0.013	Kaplan-Meier Survival Analysis
MESO	0.0001	Kaplan-Meier Survival Analysis
SKCM	0.0001	Kaplan-Meier Survival Analysis
BRCA	0.0008	Kaplan-Meier Survival Analysis
KIRP	0.011	Kaplan-Meier Survival Analysis
COAD	0.0007	Kaplan-Meier Survival Analysis
PAAD	0.0001	Kaplan-Meier Survival Analysis
BLCA	0.023	Kaplan-Meier Survival Analysis
CESC	0.028	Kaplan-Meier Survival Analysis
READ	0.045	Kaplan-Meier Survival Analysis
LAML	0.001	Kaplan-Meier Survival Analysis
KICH	0.0014	Kaplan-Meier Survival Analysis
UCEC	0.047	Kaplan-Meier Survival Analysis
LIHC	0.0001	Kaplan-Meier Survival Analysis
CHOL	0.032	Kaplan-Meier Survival Analysis
LUAD	0.00073	Kaplan-Meier Survival Analysis

Drugs

EuRBPDB

Description

RBPome

Literatures

Expression

Transcripts

Gene Model

Pathways

Phenotypes

GWAS

PPI

Orthologs

Gene Ontology

Select Dataset :

Input Drug :

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Eesembl ID

Cell lines and drugs in GSE70138 or GSE92742