EuRBPDB

Description

Ensembl ID: ENSG00000168438 (Gene tree)
Gene ID: 51362
Gene Symbol: CDC40
Alias: PRP17|EHB3|PRPF17|FLJ10564
Full Name: cell division cycle 40
Gene Type: protein_coding
Species: Homo_sapiens
Status: confidence
Strand: Plus strand
Length: 74,135 bases
Position: chr6:110,180,141-110,254,275
Accession: 17350
RBP type: non-canonical RBP
Summary: Pre-mRNA splicing occurs in two sequential transesterification steps. The protein encoded by this gene is found to be essential for the catalytic step II in pre-mRNA splicing process. It is found in the spliceosome, and contains seven WD repeats, which function in protein-protein interactions. This protein has a sequence similarity to yeast Prp17 protein, which functions in two different cellular processes: pre-mRNA splicing and cell cycle progression. It suggests that this protein may play a role in cell cycle progression. [provided by RefSeq, Jul 2008]

RNA binding proteome (RBPome)

PID	Title	Method	Time	Author	Doi
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
22658674	Insights into RNA biology from an atlas of mammalian mRNA-binding proteins	RIC & Hela	2012 May 31	Castello A	DOI: 10.1016/j.cell.2012.04.031
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

Protein-RNA interaction（RNA-Binding Site）

Literatures on RNA binding capacity

PID	Title	Article	Time	Author	Doi
28919079	Structure of an Intron Lariat Spliceosome from Saccharomyces cerevisiae.	Cell	2017 Sep 21	Wan R	doi: 10.1016/j.cell.2017.08.029

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000606893	CDC40-207	3372	-	-	- (aa)	-	-
ENST00000431461	CDC40-204	400	-	-	- (aa)	-	-
ENST00000307731	CDC40-201	3848	-	ENSP00000304370	579 (aa)	-	O60508
ENST00000453107	CDC40-206	306	-	-	- (aa)	-	-
ENST00000368930	CDC40-202	1977	-	ENSP00000357926	539 (aa)	-	Q5SRN1
ENST00000368932	CDC40-203	3933	-	ENSP00000357928	579 (aa)	-	O60508
ENST00000445340	CDC40-205	357	-	-	- (aa)	-	-

Gene Model

Pathways

Pathway ID	Pathway Name	Source
hsa03040	Spliceosome	KEGG

GWAS

ensgID	SNP	Chromosome	Position	SNP-risk	Trait	PubmedID	95% CI	Or or BEAT	EFO ID
ENSG00000168438	rs56017032	6	110235360	G	Perceived unattractiveness to mosquitoes	28199695	[0.17-0.41] unit increase	0.290305	EFO_0008380
ENSG00000168438	rs12189608	6	110252089	A	Blood protein levels	30072576	[0.26-0.5] unit increase	0.378	EFO_0007937

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
ENSG00000168438	CDC40	100	98.791	ENSMUSG00000038446	Cdc40	100	98.791	Mus_musculus

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0000398	mRNA splicing, via spliceosome	11991638.	IC	Process
GO:0000398	mRNA splicing, via spliceosome	-	TAS	Process
GO:0003723	RNA binding	22658674.	HDA	Function
GO:0005515	protein binding	22365833.	IPI	Function
GO:0005634	nucleus	-	IDA	Component
GO:0005654	nucleoplasm	-	TAS	Component
GO:0005681	spliceosomal complex	9524131.	TAS	Component
GO:0006405	RNA export from nucleus	-	TAS	Process
GO:0006406	mRNA export from nucleus	-	TAS	Process
GO:0008380	RNA splicing	9524131.	TAS	Process
GO:0031124	mRNA 3'-end processing	-	TAS	Process
GO:0071007	U2-type catalytic step 2 spliceosome	28076346.	IDA	Component
GO:0071013	catalytic step 2 spliceosome	21873635.	IBA	Component
GO:0071013	catalytic step 2 spliceosome	11991638.	IDA	Component