SZGR2

Summary ?

GeneID	57523
Symbol	NYNRIN
Synonyms	CGIN1\|KIAA1305
Description	NYN domain and retroviral integrase containing
Reference	HGNC:HGNC:20165\|Ensembl:ENSG00000205978\|Vega:OTTHUMG00000171314
Gene type	protein-coding
Map location	14q12
Pascal p-value	0.516
Sherlock p-value	0.152
Fetal beta	2.607
eGene	Myers' cis & trans
Support	CompositeSet

Gene in Data Sources

Gene set name	Method of gene set	Description
CV:GWASdb	Genome-wide Association Studies	GWASdb records for schizophrenia
CV:PGCnp	Genome-wide Association Study	GWAS
DNM:Fromer_2014	Whole Exome Sequencing analysis	This study reported a WES study of 623 schizophrenia trios, reporting DNMs using genomic DNA.

Section I. Genetics and epigenetics annotation

DNM table

Gene	Chromosome	Position	Ref	Alt	Transcript	AA change	Mutation type	Sift	CG46	Trait	Study
NYNRIN	chr14	24884073	C	T	NM_025081	p.1040R>W	missense			Schizophrenia	DNM:Fromer_2014

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	qvalue	eQTL type
rs6687849	chr1	175904808	NYNRIN	57523	0.13	trans
rs2481653	chr1	176044120	NYNRIN	57523	0.17	trans
rs2502827	chr1	176044216	NYNRIN	57523	0.01	trans
rs17572651	chr1	218943612	NYNRIN	57523	0.06	trans
rs16829545	chr2	151977407	NYNRIN	57523	2.59E-19	trans
rs16841750	chr2	158288461	NYNRIN	57523	0.03	trans
rs3845734	chr2	171125572	NYNRIN	57523	5.374E-5	trans
rs7584986	chr2	184111432	NYNRIN	57523	1.899E-13	trans
rs6741060	chr2	217169088	NYNRIN	57523	0.14	trans
rs9810143	chr3	5060209	NYNRIN	57523	0.02	trans
rs2183142	chr4	159232695	NYNRIN	57523	0.06	trans
rs170776	chr4	173276735	NYNRIN	57523	0.11	trans
rs1396222	chr4	173279496	NYNRIN	57523	0.05	trans
rs335980	chr4	173329784	NYNRIN	57523	0.07	trans
rs335982	chr4	173330945	NYNRIN	57523	0.14	trans
rs337984	chr4	173411662	NYNRIN	57523	0.07	trans
rs17762315	chr5	76807576	NYNRIN	57523	0.08	trans
rs10491487	chr5	80323367	NYNRIN	57523	0.03	trans
rs9461864	chr6	33481468	NYNRIN	57523	0.06	trans
rs16890367	chr6	38078448	NYNRIN	57523	0.07	trans
rs3118341	chr9	25185518	NYNRIN	57523	0.02	trans
rs9406868	chr9	25223372	NYNRIN	57523	0.17	trans
rs11139334	chr9	84209393	NYNRIN	57523	0.03	trans
rs6480454	chr10	72108174	NYNRIN	57523	0.15	trans
rs12253651	chr10	72109045	NYNRIN	57523	0.15	trans
rs17104720	chr14	77127308	NYNRIN	57523	0.07	trans
rs16955618	chr15	29937543	NYNRIN	57523	1.787E-32	trans
rs11873184	chr18	1584081	NYNRIN	57523	0.08	trans
rs1041786	chr21	22617710	NYNRIN	57523	0.01	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	Neuro keywords	PubMed ID
GO:0003677	DNA binding	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0015074	DNA integration	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0016020	membrane	IEA		-
GO:0016021	integral to membrane	IEA		-

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
SOTIRIOU BREAST CANCER GRADE 1 VS 3 DN	52	34	All SZGR 2.0 genes in this pathway
DAVICIONI MOLECULAR ARMS VS ERMS DN	182	111	All SZGR 2.0 genes in this pathway
GARGALOVIC RESPONSE TO OXIDIZED PHOSPHOLIPIDS GREY DN	74	44	All SZGR 2.0 genes in this pathway
KINSEY TARGETS OF EWSR1 FLII FUSION DN	329	219	All SZGR 2.0 genes in this pathway
KIM WT1 TARGETS 12HR UP	162	116	All SZGR 2.0 genes in this pathway
BERENJENO TRANSFORMED BY RHOA DN	394	258	All SZGR 2.0 genes in this pathway
MOHANKUMAR TLX1 TARGETS DN	193	112	All SZGR 2.0 genes in this pathway
MANALO HYPOXIA UP	207	145	All SZGR 2.0 genes in this pathway
WEST ADRENOCORTICAL TUMOR DN	546	362	All SZGR 2.0 genes in this pathway
CHANG CORE SERUM RESPONSE DN	209	137	All SZGR 2.0 genes in this pathway
DURAND STROMA S UP	297	194	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	706	713	1A,m8	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-124/506	103	109	m8	hsa-miR-506	UAAGGCACCCUUCUGAGUAGA
miR-124/506	103	109	m8	hsa-miR-124^brain	UAAGGCACGCGGUGAAUGCC
miR-15/16/195/424/497	45	52	1A,m8	hsa-miR-15a^brain	UAGCAGCACAUAAUGGUUUGUG
				hsa-miR-16^brain	UAGCAGCACGUAAAUAUUGGCG
				hsa-miR-15b^brain	UAGCAGCACAUCAUGGUUUACA
				hsa-miR-195^SZ	UAGCAGCACAGAAAUAUUGGC
				hsa-miR-424	CAGCAGCAAUUCAUGUUUUGAA
				hsa-miR-497	CAGCAGCACACUGUGGUUUGU
miR-503	46	52	1A	hsa-miR-503	UAGCAGCGGGAACAGUUCUGCAG

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: NYNRIN