EuRBPDB

Description

RBPome

Expression

Transcripts

Gene Model

Phenotypes

GWAS

PPI

Orthologs

Gene Ontology

Description

Ensembl ID: ENSG00000103549 (Gene tree)
Gene ID: 9810
Gene Symbol: RNF40
Alias: KIAA0661|RBP95|BRE1B|STARING
Full Name: ring finger protein 40
Gene Type: protein_coding
Species: Homo_sapiens
Status: putative
Strand: Plus strand
Length: 40,729 bases
Position: chr16:30,761,612-30,802,340
Accession: 16867
RBP type: non-canonical RBP
Summary: The protein encoded by this gene contains a RING finger, a motif known to be involved in protein-protein and protein-DNA interactions. This protein was reported to interact with the tumor suppressor protein RB1. Studies of the rat counterpart suggested that this protein may function as an E3 ubiquitin-protein ligase, and facilitate the ubiquitination and degradation of syntaxin 1, which is an essential component of the neurotransmitter release machinery. Multiple alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, May 2011]

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
29431736	Capturing the interactome of newly transcribed RNA	PolyT-RICK & Hela	2018 Feb 12	Bao X	DOI: 10.1038/nmeth.4595
29431736	Capturing the interactome of newly transcribed RNA	RICK & Hela	2018 Feb 12	Bao X	DOI: 10.1038/nmeth.4595

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000566703	RNF40-209	808	-	-	- (aa)	-	-
ENST00000563909	RNF40-205	711	-	ENSP00000455678	111 (aa)	-	H3BQ99
ENST00000566811	RNF40-210	569	-	ENSP00000457697	129 (aa)	-	H3BUL6
ENST00000565931	RNF40-207	481	-	ENSP00000460142	144 (aa)	-	I3L332
ENST00000324685	RNF40-201	5634	XM_011545997	ENSP00000325677	1001 (aa)	XP_011544299	O75150
ENST00000564260	RNF40-206	768	-	-	- (aa)	-	-
ENST00000357890	RNF40-202	3917	-	ENSP00000350563	901 (aa)	-	O75150
ENST00000563683	RNF40-204	4063	-	ENSP00000455180	961 (aa)	-	H3BP71
ENST00000493683	RNF40-203	5371	-	-	- (aa)	-	-
ENST00000602784	RNF40-212	991	-	ENSP00000473507	14 (aa)	-	R4GN66
ENST00000565995	RNF40-208	586	-	ENSP00000456538	174 (aa)	-	H3BS50
ENST00000567365	RNF40-211	597	-	ENSP00000477937	177 (aa)	-	A0A087WTK2

Gene Model

Click here to download ENSG00000103549's gene model file

Phenotypes

ensgID	Trait	pValue	Pubmed ID
ENSG00000103549	Blood Pressure	7.8292040E-005	-
ENSG00000103549	Blood Pressure	7.3546243E-005	-

GWAS

ensgID	SNP	Chromosome	Position	SNP-risk	Trait	PubmedID	95% CI	Or or BEAT	EFO ID
ENSG00000103549	rs11642862	16	30774503	?	Tonsillectomy	28928442	[0.036-0.087] unit increase	0.0617	EFO_0007924

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000103549'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
ENSG00000103549	RNF40	98	49.028	FBgn0086694	Bre1	98	43.361	Drosophila_melanogaster
ENSG00000103549	RNF40	99	66.667	ENSG00000155827	RNF20	100	70.297	Homo_sapiens

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0000151	ubiquitin ligase complex	16307923.	IDA	Component
GO:0003730	mRNA 3'-UTR binding	19575011.	IDA	Function
GO:0004842	ubiquitin-protein transferase activity	16307923.	IDA	Function
GO:0005515	protein binding	10944455.16189514.16307923.17500595.19410543.21329877.25416956.26871637.	IPI	Function
GO:0005634	nucleus	10944455.16307923.	IDA	Component
GO:0005654	nucleoplasm	-	IDA	Component
GO:0005654	nucleoplasm	-	TAS	Component
GO:0005829	cytosol	-	IEA	Component
GO:0006511	ubiquitin-dependent protein catabolic process	-	ISS	Process
GO:0007346	regulation of mitotic cell cycle	19575011.	IMP	Process
GO:0010390	histone monoubiquitination	16307923.	IDA	Process
GO:0016020	membrane	19946888.	HDA	Component
GO:0016567	protein ubiquitination	-	TAS	Process
GO:0017075	syntaxin-1 binding	-	IEA	Function
GO:0019898	extrinsic component of membrane	-	IEA	Component
GO:0031624	ubiquitin conjugating enzyme binding	-	IEA	Function
GO:0031625	ubiquitin protein ligase binding	16307923.	IPI	Function
GO:0033503	HULC complex	19410543.	IDA	Component
GO:0033523	histone H2B ubiquitination	16307923.	IDA	Process
GO:0042803	protein homodimerization activity	10944455.	IPI	Function
GO:0043005	neuron projection	-	ISS	Component
GO:0043434	response to peptide hormone	-	IEA	Process
GO:0043679	axon terminus	-	IEA	Component
GO:0044877	protein-containing complex binding	-	IEA	Function
GO:0046872	metal ion binding	-	IEA	Function
GO:1900364	negative regulation of mRNA polyadenylation	19575011.	IMP	Process
GO:1901800	positive regulation of proteasomal protein catabolic process	-	IEA	Process
GO:1902916	positive regulation of protein polyubiquitination	-	IEA	Process
GO:2001168	positive regulation of histone H2B ubiquitination	19575011.	IMP	Process