Gene Report

Basic information

Related studies

Functional annotation

Related other genetic factors

Overlap with SZ and MDD

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Basic Info

Approved Symbol	RNF4
Symbol Alias	RES4-26, SNURF, SLX5
Approved Name	ring finger protein 4
Location	4p16.3
Position	chr4:2462220-2625320, 1
External Links	HGNC: 10067 Entrez Gene: 6047 Ensembl: ENSG00000063978 UCSC: uc003gfb.3
No. of Studies	1 (Positive: 0; Negative: 0; trend: 1)
Overlap with SZ?	YES
Overlap with MDD?	NO

Gene related studies (count: 1)

Reference	Tested Markers	Statistical Values/Author Comments	Result Category	Comment on Study
Curtis, D.,2011	SNP: rs1203847	There is a trend of this gene for significant association.	Trend	Comment on Study

Gene functional annotation

Gene related GO terms (count: 28)

GO terms by PBA (count: 3)

ID	Name	Type	Evidence[PMID]	No. of Genes in BDgene
GO:0003677	DNA binding	molecular function	ISS	83
GO:0005634	nucleus	cellular component	IDA[12885770]	283
GO:0003700	sequence-specific DNA binding transcription factor activity	molecular function	TAS[9710597]	66

GO terms by database search (count: 25)

ID	Name	Type	Evidence[PMID]	No. of Genes in BDgene
GO:0046685	response to arsenic-containing substance	biological process	IDA[20943951]	2
GO:0016874	ligase activity	molecular function	IEA	16
GO:0070979	protein K11-linked ubiquitination	biological process	ISS	4
GO:0070936	protein K48-linked ubiquitination	biological process	ISS	3
GO:0003713	transcription coactivator activity	molecular function	NAS[15572661]	22
GO:0043161	proteasome-mediated ubiquitin-dependent protein catabolic process	biological process	IMP[18408734]	13
GO:0051865	protein autoubiquitination	biological process	ISS	2
GO:0006351	transcription, DNA-templated	biological process	IEA	103
GO:0030521	androgen receptor signaling pathway	biological process	NAS[15572661]	5
GO:0008270	zinc ion binding	molecular function	IEA	77
GO:0045944	positive regulation of transcription from RNA polymerase II promoter	biological process	IDA[12885770]	91
GO:0031491	nucleosome binding	molecular function	ISS	1
GO:0090234	regulation of kinetochore assembly	biological process	IMP[20212317]	1
GO:0016605	PML body	cellular component	IDA[20943951]	7
GO:0085020	protein K6-linked ubiquitination	biological process	ISS	2
GO:0042802	identical protein binding	molecular function	IPI[24714598]	44
GO:0005737	cytoplasm	cellular component	IDA[12885770]	322
GO:0070534	protein K63-linked ubiquitination	biological process	ISS	4
GO:0045893	positive regulation of transcription, DNA-templated	biological process	ISS	58
GO:0090169	regulation of spindle assembly	biological process	IMP[20212317]	1
GO:0004842	ubiquitin-protein transferase activity	molecular function	ISS	12
GO:0008134	transcription factor binding	molecular function	IEA	28
GO:0050681	androgen receptor binding	molecular function	NAS[15572661]	4
GO:0005515	protein binding	molecular function	IPI[12885770]	563
GO:0032184	SUMO polymer binding	molecular function	ISS	1

Gene related KEGG pathways (count: 0)

Gene related BioCarta pathways (count: 0)

Gene related interactors from protein-protein interactions data in HPRD (count: 8)

Gene	Interactor	Interactor in BDgene?	Experiment Type	PMID
RNF4	TBP	YES	in vitro	11696545
RNF4	PATZ1	NO	in vitro;in vivo;yeast 2-hybrid	10713105 , 11719514
RNF4	HMGA1	NO	in vitro;yeast 2-hybrid	10713105
RNF4	GSC2	YES	in vitro;in vivo;yeast 2-hybrid	10822263
RNF4	TCF20	NO	in vitro;yeast 2-hybrid	10849425
RNF4	ESR1	YES	in vitro;in vivo	11696545
RNF4	TRPS1	NO	in vitro;in vivo;yeast 2-hybrid	12885770
RNF4	AR	NO	in vitro;in vivo;yeast 2-hybrid	9710597 , 11719514 , 10617653

Related other genetic factors

Gene related SNPs (count: 4)

Literature-origin SNPs (count: 2)

rs_ID	Location	Functional Annotation	No. of Studies (Positive/Negative/Trend)
rs1203860	chr4:2503364 - 2503364(1)	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1(0/1/0)
rs1203847	chr4:2515720 - 2515720(1)	3_prime_UTR_variant; downstream_gene_variant; intron_variant; NMD_transcript_variant	1(0/0/1)

LD-proxies (count: 2)

rs_ID	Literature-origin SNPs with LD	Location	Functional Annotation
rs961067		chr4:2503879 - 2503879(1)	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant
rs1203848		chr4:2510736 - 2510736(1)	intron_variant; NMD_transcript_variant; non_coding_transcript_variant; upstream_gene_variant

Gene related CNVs (count: 0)

Gene related other variants (count: 0)

Gene related regions (count: 4)

Region Name	Position	No. of Studies (Positive/Negative/Trend)
4p16.3	chr4:0-4500000	1 (1/0/0)
Chr 4	chr4:0-190214555	3 (0/3/0)
4p16	chr4:0-11300000	2 (0/1/1)
4p	chr4:0-50000000	1 (0/1/0)

Overlap with schizophrenia (SZ) and major depressive disorder (MDD)

Gene relationship with SZ

Overlap with SZ from cross-disorder studies (count: 1)

Reference	Description	Result Category
21057379	There is a trend of this gene for significant association.	Trend

Overlap with SZ from candidate gene intersection analysis (count: 0)

Gene relationship with MDD

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Region: chr4:2462220..2625320 View in gBrowse