EuRBPDB

Description

Ensembl ID: ENSG00000164944 (Gene tree)
Gene ID: 25962
Gene Symbol: VIRMA
Alias: DKFZP434I116|fSAP121|KIAA1429
Full Name: vir like m6A methyltransferase associated
Gene Type: protein_coding
Species: Homo_sapiens
Status: confidence
Strand: Minus strand
Length: 65,837 bases
Position: chr8:94,487,693-94,553,529
Accession: 24500
RBP type: non-canonical RBP
Summary: (Vir Like M6A Methyltransferase Associated) is a Protein Coding gene. Diseases associated with VIRMA include Retinitis Pigmentosa 42 and Wilms Tumor 1. Among its related pathways are Chromatin Regulation / Acetylation.

RNA binding proteome (RBPome)

PID	Title	Method	Time	Author	Doi
22681889	The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts	4SURIC & HEK293	2012 May	Baltz AG	DOI: 10.1016/j.molcel.2012.05.021
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
29431736	Capturing the interactome of newly transcribed RNA	RICK & Hela	2018 Feb 12	Bao X	DOI: 10.1038/nmeth.4595
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
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
31285549	KIAA1429 acts as an oncogenic factor in breast cancer by regulating CDK1 in an N6-methyladenosine-independent manner.	Oncogene	2019 Jul 8	Qian JY	doi: 10.1038/s41388-019-0861-z

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000523263	VIRMA-208	609	-	ENSP00000428784	91 (aa)	-	H0YB68
ENST00000297591	VIRMA-201	6528	XM_017013306	ENSP00000297591	1812 (aa)	XP_016868795	Q69YN4
ENST00000519001	VIRMA-204	460	-	-	- (aa)	-	-
ENST00000521080	VIRMA-205	6472	-	-	- (aa)	-	-
ENST00000522263	VIRMA-207	3219	-	ENSP00000429909	730 (aa)	-	H0YBN5
ENST00000522196	VIRMA-206	574	-	-	- (aa)	-	-
ENST00000421249	VIRMA-202	3924	-	ENSP00000398390	1147 (aa)	-	Q69YN4
ENST00000517624	VIRMA-203	497	-	ENSP00000430857	60 (aa)	-	H0YC41
ENST00000523405	VIRMA-209	562	-	-	- (aa)	-	-

Gene Model

Phenotypes

ensgID	Trait	pValue	Pubmed ID
ENSG00000164944	Platelet Function Tests	3.8100000E-006	-
ENSG00000164944	Cleft Lip	1E-12	28232668
ENSG00000164944	Cleft Palate	1E-12	28232668
ENSG00000164944	Body Mass Index	3E-6	25673413

GWAS

ensgID	SNP	Chromosome	Position	SNP-risk	Trait	PubmedID	95% CI	Or or BEAT	EFO ID
ENSG00000164944	rs76706433	8	94529231	C	Cleft palate	27018472	[2.72-13.05]	5.96	HP_0000175
ENSG00000164944	rs76706433	8	94529231	C	Cleft palate	27018472	[2.964-15.56]	6.79	HP_0000175
ENSG00000164944	rs76706433	8	94529231	C	Cleft palate	27018472	[2.96-15.56]	6.79	HP_0000175
ENSG00000164944	rs4366055	8	94495100	C	Body mass index	28892062	[0.014-0.026] kg/m2 decrease	0.02	EFO_0004340
ENSG00000164944	rs957448	8	94529074	A	Nonsyndromic cleft lip with cleft palate	28232668	[NR]	1.2345679	HP_0000175\|EFO_0003959

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
ENSG00000164944	VIRMA	100	95.695	ENSMUSG00000040720	Virma	100	95.695	Mus_musculus

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0003723	RNA binding	22681889.	HDA	Function
GO:0005515	protein binding	29507755.	IPI	Function
GO:0005654	nucleoplasm	24100041.	IDA	Component
GO:0005829	cytosol	-	IDA	Component
GO:0006397	mRNA processing	-	IEA	Process
GO:0007275	multicellular organism development	-	IEA	Process
GO:0008380	RNA splicing	-	IEA	Process
GO:0016604	nuclear body	-	IDA	Component
GO:0016607	nuclear speck	24100041.	IDA	Component
GO:0036396	RNA N6-methyladenosine methyltransferase complex	29507755.	IDA	Component
GO:0036396	RNA N6-methyladenosine methyltransferase complex	24981863.	IDA	Component
GO:0080009	mRNA methylation	29507755.	IDA	Process
GO:0080009	mRNA methylation	24981863.	IMP	Process
GO:0110104	mRNA alternative polyadenylation	29507755.	IDA	Process