EuRBPDB

Description

Ensembl ID: ENSG00000129083 (Gene tree)
Gene ID: 1315
Gene Symbol: COPB1
Alias: COPB
Full Name: coatomer protein complex subunit beta 1
Gene Type: protein_coding
Species: Homo_sapiens
Status: confidence
Strand: Minus strand
Length: 56,588 bases
Position: chr11:14,443,440-14,500,027
Accession: 2231
RBP type: non-canonical RBP
Summary: This gene encodes a protein subunit of the coatomer complex associated with non-clathrin coated vesicles. The coatomer complex, also known as the coat protein complex 1, forms in the cytoplasm and is recruited to the Golgi by activated guanosine triphosphatases. Once at the Golgi membrane, the coatomer complex may assist in the movement of protein and lipid components back to the endoplasmic reticulum. Alternatively spliced transcript variants have been described. [provided by RefSeq, Jan 2009]

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
29431736	Capturing the interactome of newly transcribed RNA	PolyT-RICK & Hela	2018 Feb 12	Bao X	DOI: 10.1038/nmeth.4595
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
27453046	Comprehensive Identification of RNA-Binding Domains in Human Cells	RIC & Hela	2016 Aug 18	Castello A	DOI: 10.1016/j.molcel.2016.06.029

Literatures on RNA binding capacity

PID	Title	Article	Time	Author	Doi
10531302	The cytoplasmic coatomer protein COPI. A potential translational regulator.	J Biol Chem	1999 Oct 29	de La Vega LA	-
2706270	Specific RNA binding by Q beta coat protein.	Biochemistry	1989 Jan 10	Witherell GW	-

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000534234	COPB1-211	1584	-	ENSP00000436383	485 (aa)	-	E9PP73
ENST00000529210	COPB1-206	607	-	-	- (aa)	-	-
ENST00000439561	COPB1-202	3382	-	ENSP00000397873	953 (aa)	-	P53618
ENST00000525214	COPB1-203	566	-	-	- (aa)	-	-
ENST00000534771	COPB1-212	576	-	ENSP00000436401	132 (aa)	-	E9PP63
ENST00000526527	COPB1-205	438	-	-	- (aa)	-	-
ENST00000533096	COPB1-209	547	-	-	- (aa)	-	-
ENST00000249923	COPB1-201	3481	-	ENSP00000249923	953 (aa)	-	P53618
ENST00000529866	COPB1-207	729	-	ENSP00000431530	137 (aa)	-	E9PKQ1
ENST00000526191	COPB1-204	697	-	-	- (aa)	-	-
ENST00000532088	COPB1-208	510	-	-	- (aa)	-	-
ENST00000533533	COPB1-210	537	-	-	- (aa)	-	-

Gene Model

Phenotypes

ensgID	Trait	pValue	Pubmed ID
ENSG00000129083	Myoglobin	2.1100000E-005	-
ENSG00000129083	Cholesterol, HDL	2E-8	26780889

GWAS

ensgID	SNP	Chromosome	Position	SNP-risk	Trait	PubmedID	95% CI	Or or BEAT	EFO ID
ENSG00000129083	rs7121538	11	14482917	C	HDL cholesterol	26780889	[0.016-0.036] unit increase	0.026	EFO_0004612
ENSG00000129083	rs55665837	11	14473503	T	Vitamin D levels	28757204	[0.06-0.1] nmol/L decrease	0.08	EFO_0004631

Protein-Protein Interaction (PPI)

* 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
ENSG00000129083	COPB1	95	53.175	YDR238C		98	43.093	Saccharomyces_cerevisiae

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0000139	Golgi membrane	-	TAS	Component
GO:0005198	structural molecule activity	-	IEA	Function
GO:0005515	protein binding	10199403.11520457.12582157.16189514.17500595.18556652.20551905.22555292.24806965.25036637.29021621.	IPI	Function
GO:0005789	endoplasmic reticulum membrane	-	TAS	Component
GO:0005793	endoplasmic reticulum-Golgi intermediate compartment	-	IEA	Component
GO:0005794	Golgi apparatus	-	IDA	Component
GO:0005798	Golgi-associated vesicle	1840503.	TAS	Component
GO:0005829	cytosol	-	IDA	Component
GO:0005829	cytosol	-	TAS	Component
GO:0005886	plasma membrane	-	TAS	Component
GO:0006886	intracellular protein transport	-	IEA	Process
GO:0006888	ER to Golgi vesicle-mediated transport	21873635.	IBA	Process
GO:0006888	ER to Golgi vesicle-mediated transport	-	TAS	Process
GO:0006890	retrograde vesicle-mediated transport, Golgi to ER	-	TAS	Process
GO:0006891	intra-Golgi vesicle-mediated transport	21873635.	IBA	Process
GO:0006891	intra-Golgi vesicle-mediated transport	-	ISS	Process
GO:0016020	membrane	19946888.	HDA	Component
GO:0016032	viral process	-	IEA	Process
GO:0030126	COPI vesicle coat	21873635.	IBA	Component
GO:0030126	COPI vesicle coat	-	ISS	Component
GO:0030133	transport vesicle	-	TAS	Component
GO:0030667	secretory granule membrane	-	TAS	Component
GO:0043231	intracellular membrane-bounded organelle	-	IDA	Component
GO:0043312	neutrophil degranulation	-	TAS	Process
GO:0070821	tertiary granule membrane	-	TAS	Component
GO:0101003	ficolin-1-rich granule membrane	-	TAS	Component