EuRBPDB

Description

Ensembl ID: ENSG00000083642 (Gene tree)
Gene ID: 23047
Gene Symbol: PDS5B
Alias: AS3|KIAA0979|FLJ23236|CG008|APRIN
Full Name: PDS5 cohesin associated factor B
Gene Type: protein_coding
Species: Homo_sapiens
Status: putative
Strand: Plus strand
Length: 191,594 bases
Position: chr13:32,586,427-32,778,020
Accession: 20418
RBP type: non-canonical RBP
Summary: This gene encodes a protein that interacts with the conserved protein complex termed cohesin. The cohesin complex holds together sister chromatids and facilitates accurate chromosome segregation during mitosis and meiosis. This protein is also a negative regulator of cell proliferation and may be a tumor-suppressor gene. [provided by RefSeq, Jul 2015]

RNA binding proteome (RBPome)

PID	Title	Method	Time	Author	Doi
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
ENST00000474274	PDS5B-205	797	-	-	- (aa)	-	-
ENST00000450460	PDS5B-203	5246	-	ENSP00000401619	1391 (aa)	-	Q9NTI5
ENST00000482955	PDS5B-207	581	-	-	- (aa)	-	-
ENST00000481616	PDS5B-206	684	-	-	- (aa)	-	-
ENST00000498550	PDS5B-209	4238	-	-	- (aa)	-	-
ENST00000466078	PDS5B-204	1889	-	-	- (aa)	-	-
ENST00000315596	PDS5B-201	7497	XM_005266298	ENSP00000313851	1447 (aa)	XP_005266355	Q9NTI5
ENST00000493653	PDS5B-208	972	-	-	- (aa)	-	-
ENST00000447833	PDS5B-202	906	-	ENSP00000407005	302 (aa)	-	A9IYQ1

Gene Model

Phenotypes

ensgID	Trait	pValue	Pubmed ID
ENSG00000083642	Neuroblastoma	5.71e-005	23222812
ENSG00000083642	Urine	9.9315851E-005	-
ENSG00000083642	Urine	6.1477967E-005	-
ENSG00000083642	Urine	8.1423309E-005	-
ENSG00000083642	Urine	5.6333807E-005	-
ENSG00000083642	Asthma	4E-6	27611488
ENSG00000083642	Body Mass Index	6E-6	25673413
ENSG00000083642	Body Mass Index	6E-6	25673413

GWAS

ensgID	SNP	Chromosome	Position	SNP-risk	Trait	PubmedID	95% CI	Or or BEAT	EFO ID
ENSG00000083642	rs185038874	13	32664993	G	Lung cancer	28604730	[1.319945542-1.689156872]	1.4931829	EFO_0001071
ENSG00000083642	rs113855064	13	32601963	C	Squamous cell lung carcinoma	28604730	[1.638002715-2.438455141]	1.9985485	EFO_0000708
ENSG00000083642	rs117371643	13	32769511	A	Squamous cell lung carcinoma	28604730	[1.226820574-1.644908003]	1.4205657	EFO_0000708
ENSG00000083642	rs532990872	13	32605908	TC	Mean platelet volume	27863252	[0.022-0.037] unit decrease	0.02947254	EFO_0004584
ENSG00000083642	rs188887209	13	32718324	?	Asthma	27611488	[0.39-0.88] unit increase	0.635	EFO_0000270
ENSG00000083642	rs11840502	13	32624572	A	Coronary artery disease	29212778	[0.026-0.054] unit decrease	0.04	EFO_0000378
ENSG00000083642	rs192470679	13	32716722	?	Accelerated cognitive decline after conversion of mild cognitive impairment to Alzheimer's disease (Alzhiemer's diagnosis trajectory interaction)	28560309	[1.73-4.05] unit increase	2.89	HP_0100543\|EFO_0000249\|EFO_0007710
ENSG00000083642	rs9595908	13	32610151	T	Body mass index	30108127	[NR] unit decrease	0.016	EFO_0004340
ENSG00000083642	rs4942792	13	32663326	G	Logical memory (delayed recall)	29274321	[0.14-0.3] unit decrease	0.22	EFO_0004874
ENSG00000083642	rs9595885	13	32593913	?	Heel bone mineral density	30595370			EFO_0009270
ENSG00000083642	rs113855064	13	32601963	C	Breast cancer	29059683	[0.12-0.26] unit increase	0.1877	EFO_0000305

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
ENSG00000083642	PDS5B	100	97.268	ENSMUSG00000034021	Pds5b	100	96.409	Mus_musculus

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0000775	chromosome, centromeric region	-	TAS	Component
GO:0000785	chromatin	21873635.	IBA	Component
GO:0000785	chromatin	16682347.	IDA	Component
GO:0002088	lens development in camera-type eye	-	IEA	Process
GO:0003677	DNA binding	19412548.	IDA	Function
GO:0005515	protein binding	15837422.15855230.17112726.17113138.17349791.20360068.21111234.22293751.	IPI	Function
GO:0005524	ATP binding	10215036.	TAS	Function
GO:0005634	nucleus	21873635.	IBA	Component
GO:0005634	nucleus	-	ISS	Component
GO:0005654	nucleoplasm	-	IDA	Component
GO:0005654	nucleoplasm	-	TAS	Component
GO:0005694	chromosome	-	TAS	Component
GO:0005829	cytosol	-	TAS	Component
GO:0006281	DNA repair	21873635.	IBA	Process
GO:0007064	mitotic sister chromatid cohesion	21873635.	IBA	Process
GO:0007064	mitotic sister chromatid cohesion	15855230.	IMP	Process
GO:0008283	cell proliferation	10963680.	TAS	Process
GO:0008285	negative regulation of cell proliferation	10963680.	IDA	Process
GO:0042127	regulation of cell proliferation	10963680.	IDA	Process
GO:0048484	enteric nervous system development	-	IEA	Process
GO:0051301	cell division	-	IEA	Process
GO:0097402	neuroblast migration	-	IEA	Process