SZGR2

Summary ?

GeneID	26064
Symbol	RAI14
Synonyms	NORPEG\|RAI13
Description	retinoic acid induced 14
Reference	MIM:606586\|HGNC:HGNC:14873\|Ensembl:ENSG00000039560\|HPRD:09416\|Vega:OTTHUMG00000162019
Gene type	protein-coding
Map location	5p13.3-p13.2
Pascal p-value	0.215
Sherlock p-value	0.021
Fetal beta	2.792
eGene	Putamen basal ganglia Myers' cis & trans

Gene in Data Sources

Gene set name	Method of gene set	Description
CV:PGCnp	Genome-wide Association Study	GWAS
DNM:McCarthy_2014	Whole Exome Sequencing analysis	Whole exome sequencing of 57 trios with sporadic or familial schizophrenia.
Network	Shortest path distance of core genes in the Human protein-protein interaction network	Contribution to shortest path in PPI network: 0.5203

Section I. Genetics and epigenetics annotation

DNM table

Gene	Chromosome	Position	Ref	Alt	Transcript	AA change	Mutation type	Sift	CG46	Trait	Study
RAI14	chr5	34687042	G	A	NM_001145520	p.A6A	synonymous SNV			Schizophrenia	DNM:McCarthy_2014

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	pvalue	qvalue	TSS distance	eQTL type
snp_a-1841078		0	RAI14	26064		0.16		trans
rs7544671	chr1	116965557	RAI14	26064		0.16		trans
rs6592556		0	RAI14	26064		0.05		trans
rs2068673	chr12	60333402	RAI14	26064		0.09		trans
rs452688	5	34628430	RAI14	ENSG00000039560.9	4.61189E-7	0	-27912	gtex_brain_putamen_basal
rs455326	5	34648725	RAI14	ENSG00000039560.9	4.10924E-8	0	-7617	gtex_brain_putamen_basal
rs464827	5	34649646	RAI14	ENSG00000039560.9	3.04231E-7	0	-6696	gtex_brain_putamen_basal

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:0005515	protein binding	IPI		17353931
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005856	cytoskeleton	IEA		-
GO:0005737	cytoplasm	IEA		-
GO:0005739	mitochondrion	IEA		-

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
PICCALUGA ANGIOIMMUNOBLASTIC LYMPHOMA UP	205	140	All SZGR 2.0 genes in this pathway
ONKEN UVEAL MELANOMA UP	783	507	All SZGR 2.0 genes in this pathway
FULCHER INFLAMMATORY RESPONSE LECTIN VS LPS UP	579	346	All SZGR 2.0 genes in this pathway
CHARAFE BREAST CANCER LUMINAL VS MESENCHYMAL DN	460	312	All SZGR 2.0 genes in this pathway
DOANE RESPONSE TO ANDROGEN DN	241	146	All SZGR 2.0 genes in this pathway
KIM WT1 TARGETS UP	214	155	All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA DN	1375	806	All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA POORLY DIFFERENTIATED UP	633	376	All SZGR 2.0 genes in this pathway
ENK UV RESPONSE EPIDERMIS DN	508	354	All SZGR 2.0 genes in this pathway
LINDGREN BLADDER CANCER CLUSTER 1 DN	378	231	All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN DN	1781	1082	All SZGR 2.0 genes in this pathway
GRAESSMANN RESPONSE TO MC AND DOXORUBICIN DN	770	415	All SZGR 2.0 genes in this pathway
GAUSSMANN MLL AF4 FUSION TARGETS G UP	238	135	All SZGR 2.0 genes in this pathway
HAMAI APOPTOSIS VIA TRAIL UP	584	356	All SZGR 2.0 genes in this pathway
SHETH LIVER CANCER VS TXNIP LOSS PAM1	229	137	All SZGR 2.0 genes in this pathway
KHETCHOUMIAN TRIM24 TARGETS UP	47	38	All SZGR 2.0 genes in this pathway
NUYTTEN NIPP1 TARGETS DN	848	527	All SZGR 2.0 genes in this pathway
MANALO HYPOXIA UP	207	145	All SZGR 2.0 genes in this pathway
REN ALVEOLAR RHABDOMYOSARCOMA DN	408	274	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 48HR DN	504	323	All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS STEM CELL AND PROGENITOR	681	420	All SZGR 2.0 genes in this pathway
BAELDE DIABETIC NEPHROPATHY DN	434	302	All SZGR 2.0 genes in this pathway
SANSOM APC TARGETS REQUIRE MYC	210	123	All SZGR 2.0 genes in this pathway
RIGGINS TAMOXIFEN RESISTANCE DN	220	147	All SZGR 2.0 genes in this pathway
STEIN ESRRA TARGETS RESPONSIVE TO ESTROGEN DN	41	26	All SZGR 2.0 genes in this pathway
FOSTER TOLERANT MACROPHAGE DN	409	268	All SZGR 2.0 genes in this pathway
IWANAGA CARCINOGENESIS BY KRAS UP	170	107	All SZGR 2.0 genes in this pathway
BONOME OVARIAN CANCER SURVIVAL SUBOPTIMAL DEBULKING	510	309	All SZGR 2.0 genes in this pathway
BOQUEST STEM CELL CULTURED VS FRESH UP	425	298	All SZGR 2.0 genes in this pathway
HUANG DASATINIB RESISTANCE UP	81	53	All SZGR 2.0 genes in this pathway
ZHANG TLX TARGETS 60HR UP	293	203	All SZGR 2.0 genes in this pathway
STEIN ESR1 TARGETS	85	55	All SZGR 2.0 genes in this pathway
FOURNIER ACINAR DEVELOPMENT LATE 2	277	172	All SZGR 2.0 genes in this pathway
WONG ADULT TISSUE STEM MODULE	721	492	All SZGR 2.0 genes in this pathway
MIKKELSEN ES ICP WITH H3K4ME3	718	401	All SZGR 2.0 genes in this pathway
MIKKELSEN NPC ICP WITH H3K4ME3	445	257	All SZGR 2.0 genes in this pathway
NAKAMURA ADIPOGENESIS EARLY DN	38	27	All SZGR 2.0 genes in this pathway
NAKAMURA ADIPOGENESIS LATE DN	38	25	All SZGR 2.0 genes in this pathway
GABRIELY MIR21 TARGETS	289	187	All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE VIA TP53 GROUP B	549	316	All SZGR 2.0 genes in this pathway
IKEDA MIR30 TARGETS UP	116	87	All SZGR 2.0 genes in this pathway
PHONG TNF RESPONSE NOT VIA P38	337	236	All SZGR 2.0 genes in this pathway
RAO BOUND BY SALL4 ISOFORM B	517	302	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
miR-103/107	1652	1659	1A,m8	hsa-miR-103^brain	AGCAGCAUUGUACAGGGCUAUGA
miR-103/107	1652	1659	1A,m8	hsa-miR-107^brain	AGCAGCAUUGUACAGGGCUAUCA
miR-124.1	555	561	m8	hsa-miR-124a	UUAAGGCACGCGGUGAAUGCCA
miR-124/506	555	561	1A	hsa-miR-506	UAAGGCACCCUUCUGAGUAGA
miR-124/506	555	561	1A	hsa-miR-124^brain	UAAGGCACGCGGUGAAUGCC
miR-153	695	702	1A,m8	hsa-miR-153	UUGCAUAGUCACAAAAGUGA
miR-183	387	393	m8	hsa-miR-183	UAUGGCACUGGUAGAAUUCACUG
miR-23	1583	1590	1A,m8	hsa-miR-23a^brain	AUCACAUUGCCAGGGAUUUCC
miR-23	1583	1590	1A,m8	hsa-miR-23b^brain	AUCACAUUGCCAGGGAUUACC
miR-30-5p	778	785	1A,m8	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-323	1583	1589	1A	hsa-miR-323^brain	GCACAUUACACGGUCGACCUCU
miR-378	731	737	1A	hsa-miR-378	CUCCUGACUCCAGGUCCUGUGU
miR-410	1768	1774	m8	hsa-miR-410	AAUAUAACACAGAUGGCCUGU
miR-448	696	702	1A	hsa-miR-448	UUGCAUAUGUAGGAUGUCCCAU
miR-452	698	704	m8	hsa-miR-452	UGUUUGCAGAGGAAACUGAGAC
miR-9	1576	1582	1A	hsa-miR-9^SZ	UCUUUGGUUAUCUAGCUGUAUGA

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: RAI14