SZGR2

Summary ?

GeneID	494470
Symbol	RNF165
Synonyms	ARKL2\|RNF111L2
Description	ring finger protein 165
Reference	HGNC:HGNC:31696\|Ensembl:ENSG00000141622\|
Gene type	protein-coding
Map location	18q21.1
Pascal p-value	0.003
Fetal beta	3.216
DMG	1 (# studies)
eGene	Myers' cis & trans

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:PGCnp	Genome-wide Association Study	GWAS
DMG:Wockner_2014	Genome-wide DNA methylation analysis	This dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24).	1

Section I. Genetics and epigenetics annotation

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg06418113	18	43915901	RNF165	1.303E-4	0.479	0.03	DMG:Wockner_2014

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	qvalue	eQTL type
rs12030788	chr1	66768128	RNF165	494470	0.14	trans
rs6753473	chr2	26526418	RNF165	494470	0	trans
rs13011747	chr2	52263123	RNF165	494470	0.12	trans
rs16829545	chr2	151977407	RNF165	494470	2.826E-4	trans
rs7584986	chr2	184111432	RNF165	494470	0.04	trans
rs1026973	chr4	20012154	RNF165	494470	0.03	trans
rs10491487	chr5	80323367	RNF165	494470	0.07	trans
rs1368303	chr5	147672388	RNF165	494470	0	trans
rs11066476	chr12	113465366	RNF165	494470	0.18	trans
rs7326787	chr13	101985741	RNF165	494470	0.08	trans
rs16955618	chr15	29937543	RNF165	494470	1.88E-6	trans
rs3829539	chr16	19722365	RNF165	494470	0.11	trans
rs749043	chr20	46995700	RNF165	494470	0.14	trans

Section II. Transcriptome annotation

General gene expression (GTEx)

Gene expression during devlopment (BrainCloud)

Footnote:
A total of 269 time points ploted, with n=38 fetal samples (x=1:38). Each triangle represents one time point.

Gene expression of temporal and spatial changes (BrainSpan)

Footnote:
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (13 - 26 postconception weeks), ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes the lower 25% and upper 25% of the expression distribution.

No co-expressed genes in brain regions

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	PubMed ID
GO:0005515	protein binding	IEA	-
GO:0008270	zinc ion binding	IEA	-
GO:0046872	metal ion binding	IEA	-

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
DODD NASOPHARYNGEAL CARCINOMA DN	1375	806	All SZGR 2.0 genes in this pathway
MARTORIATI MDM4 TARGETS FETAL LIVER UP	227	137	All SZGR 2.0 genes in this pathway
STARK PREFRONTAL CORTEX 22Q11 DELETION UP	195	138	All SZGR 2.0 genes in this pathway
GRADE COLON CANCER UP	871	505	All SZGR 2.0 genes in this pathway
ROME INSULIN TARGETS IN MUSCLE DN	204	114	All SZGR 2.0 genes in this pathway
HOELZEL NF1 TARGETS DN	115	73	All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE VIA TP53 GROUP D	280	158	All SZGR 2.0 genes in this pathway
LIM MAMMARY STEM CELL UP	489	314	All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA family	Target position			miRNA ID	miRNA seq
miRNA family	UTR start	UTR end	Match method	miRNA ID	miRNA seq
let-7/98	3946	3952	1A	hsa-let-7a^brain	UGAGGUAGUAGGUUGUAUAGUU
				hsa-let-7b^brain	UGAGGUAGUAGGUUGUGUGGUU
				hsa-let-7c^brain	UGAGGUAGUAGGUUGUAUGGUU
				hsa-let-7d^brain	AGAGGUAGUAGGUUGCAUAGU
				hsa-let-7e^brain	UGAGGUAGGAGGUUGUAUAGU
				hsa-let-7f^brain	UGAGGUAGUAGAUUGUAUAGUU
				hsa-miR-98^brain	UGAGGUAGUAAGUUGUAUUGUU
				hsa-let-7g^SZ	UGAGGUAGUAGUUUGUACAGU
				hsa-let-7i^brain	UGAGGUAGUAGUUUGUGCUGU
miR-1/206	4121	4128	1A,m8	hsa-miR-1	UGGAAUGUAAAGAAGUAUGUA
				hsa-miR-206^SZ	UGGAAUGUAAGGAAGUGUGUGG
				hsa-miR-613	AGGAAUGUUCCUUCUUUGCC
miR-10	3784	3790	m8	hsa-miR-10a	UACCCUGUAGAUCCGAAUUUGUG
miR-10	3784	3790	m8	hsa-miR-10b	UACCCUGUAGAACCGAAUUUGU
miR-124.1	3805	3811	m8	hsa-miR-124a	UUAAGGCACGCGGUGAAUGCCA
miR-124/506	3247	3253	m8	hsa-miR-506	UAAGGCACCCUUCUGAGUAGA
				hsa-miR-124^brain	UAAGGCACGCGGUGAAUGCC
				hsa-miR-506	UAAGGCACCCUUCUGAGUAGA
				hsa-miR-124^brain	UAAGGCACGCGGUGAAUGCC
miR-126/126-3p	3994	4000	1A	hsa-miR-126^brain	UCGUACCGUGAGUAAUAAUGC
miR-129-5p	3751	3757	1A	hsa-miR-129^brain	CUUUUUGCGGUCUGGGCUUGC
				hsa-miR-129-5p	CUUUUUGCGGUCUGGGCUUGCU
				hsa-miR-129^brain	CUUUUUGCGGUCUGGGCUUGC
				hsa-miR-129-5p	CUUUUUGCGGUCUGGGCUUGCU
miR-130/301	1766	1772	m8	hsa-miR-130a^brain	CAGUGCAAUGUUAAAAGGGCAU
				hsa-miR-301	CAGUGCAAUAGUAUUGUCAAAGC
				hsa-miR-130b^brain	CAGUGCAAUGAUGAAAGGGCAU
				hsa-miR-454-3p	UAGUGCAAUAUUGCUUAUAGGGUUU
miR-142-5p	4050	4056	m8	hsa-miR-142-5p	CAUAAAGUAGAAAGCACUAC
miR-143	3677	3683	m8	hsa-miR-143^brain	UGAGAUGAAGCACUGUAGCUCA
miR-148/152	1767	1773	m8	hsa-miR-148a	UCAGUGCACUACAGAACUUUGU
				hsa-miR-152^brain	UCAGUGCAUGACAGAACUUGGG
				hsa-miR-148b	UCAGUGCAUCACAGAACUUUGU
miR-150	666	672	m8	hsa-miR-150	UCUCCCAACCCUUGUACCAGUG
miR-153	1083	1090	1A,m8	hsa-miR-153	UUGCAUAGUCACAAAAGUGA
miR-19	1765	1771	m8	hsa-miR-19a	UGUGCAAAUCUAUGCAAAACUGA
miR-19	1765	1771	m8	hsa-miR-19b	UGUGCAAAUCCAUGCAAAACUGA
miR-218	113	119	m8	hsa-miR-218^brain	UUGUGCUUGAUCUAACCAUGU
miR-218	113	119	m8	hsa-miR-218^brain	UUGUGCUUGAUCUAACCAUGU
miR-219	3818	3824	1A	hsa-miR-219^brain	UGAUUGUCCAAACGCAAUUCU
miR-221/222	3646	3652	1A	hsa-miR-221^brain	AGCUACAUUGUCUGCUGGGUUUC
miR-221/222	3646	3652	1A	hsa-miR-222^brain	AGCUACAUCUGGCUACUGGGUCUC
miR-24	82	89	1A,m8	hsa-miR-24^SZ	UGGCUCAGUUCAGCAGGAACAG
miR-28	3466	3472	m8	hsa-miR-28^brain	AAGGAGCUCACAGUCUAUUGAG
miR-29	4101	4107	m8	hsa-miR-29a^SZ	UAGCACCAUCUGAAAUCGGUU
				hsa-miR-29b^SZ	UAGCACCAUUUGAAAUCAGUGUU
				hsa-miR-29c^SZ	UAGCACCAUUUGAAAUCGGU
				hsa-miR-29a^SZ	UAGCACCAUCUGAAAUCGGUU
				hsa-miR-29b^SZ	UAGCACCAUUUGAAAUCAGUGUU
				hsa-miR-29c^SZ	UAGCACCAUUUGAAAUCGGU
miR-30-5p	3780	3786	1A	hsa-miR-30a-5p	UGUAAACAUCCUCGACUGGAAG
				hsa-miR-30c^brain	UGUAAACAUCCUACACUCUCAGC
				hsa-miR-30d^SZ	UGUAAACAUCCCCGACUGGAAG
				hsa-miR-30b^SZ	UGUAAACAUCCUACACUCAGCU
				hsa-miR-30e-5p	UGUAAACAUCCUUGACUGGA
				hsa-miR-30a-5p	UGUAAACAUCCUCGACUGGAAG
				hsa-miR-30c^brain	UGUAAACAUCCUACACUCUCAGC
				hsa-miR-30d^SZ	UGUAAACAUCCCCGACUGGAAG
				hsa-miR-30b^SZ	UGUAAACAUCCUACACUCAGCU
				hsa-miR-30e-5p	UGUAAACAUCCUUGACUGGA
miR-329	4074	4080	m8	hsa-miR-329^brain	AACACACCUGGUUAACCUCUUU
miR-33	4134	4140	1A	hsa-miR-33	GUGCAUUGUAGUUGCAUUG
miR-33	4134	4140	1A	hsa-miR-33b	GUGCAUUGCUGUUGCAUUGCA
miR-330	3979	3985	m8	hsa-miR-330^brain	GCAAAGCACACGGCCUGCAGAGA
miR-374	3895	3901	1A	hsa-miR-374	UUAUAAUACAACCUGAUAAGUG
miR-377	4076	4082	m8	hsa-miR-377	AUCACACAAAGGCAACUUUUGU
miR-448	1084	1090	1A	hsa-miR-448	UUGCAUAUGUAGGAUGUCCCAU
miR-450	1087	1093	1A	hsa-miR-450	UUUUUGCGAUGUGUUCCUAAUA
miR-452	4136	4142	m8	hsa-miR-452	UGUUUGCAGAGGAAACUGAGAC
miR-485-5p	3489	3495	m8	hsa-miR-485-5p	AGAGGCUGGCCGUGAUGAAUUC
miR-487b	3995	4001	m8	hsa-miR-487b	AAUCGUACAGGGUCAUCCACUU
miR-494	3673	3679	1A	hsa-miR-494^brain	UGAAACAUACACGGGAAACCUCUU
miR-539	730	736	1A	hsa-miR-539	GGAGAAAUUAUCCUUGGUGUGU
miR-539	730	736	1A	hsa-miR-539	GGAGAAAUUAUCCUUGGUGUGU

SZ: miRNAs which differentially expressed in brain cortex of schizophrenia patients comparing with control samples using microarray. Click here to see the list of SZ related miRNAs.
Brain: miRNAs which are expressed in brain based on miRNA microarray expression studies. Click here to see the list of brain related miRNAs.

Gene Page: RNF165