SZGR2

Summary ?

GeneID	4857
Symbol	NOVA1
Synonyms	Nova-1
Description	neuro-oncological ventral antigen 1
Reference	MIM:602157\|HGNC:HGNC:7886\|Ensembl:ENSG00000139910\|HPRD:03693\|Vega:OTTHUMG00000029385
Gene type	protein-coding
Map location	14q
Pascal p-value	0.015
Sherlock p-value	0.681
Fetal beta	-0.383

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:GWASdb	Genome-wide Association Studies	GWASdb records for schizophrenia
CV:PGCnp	Genome-wide Association Study	GWAS
PMID:cooccur	High-throughput literature-search	Systematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
GSMA_I	Genome scan meta-analysis	Psr: 0.047
Literature	High-throughput literature-search	Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenias	Click to show details
GO_Annotation	Mapping neuro-related keywords to Gene Ontology annotations	Hits with neuro-related keywords: 1

Section I. Genetics and epigenetics annotation

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:0003729	mRNA binding	IEA		-
GO:0005515	protein binding	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0007268	synaptic transmission	TAS	neuron, Synap, Neurotransmitter (GO term level: 6)	8558240
GO:0000398	nuclear mRNA splicing, via spliceosome	IEA		-
GO:0008380	RNA splicing	TAS		8398153
GO:0007626	locomotory behavior	TAS		8558240
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005634	nucleus	IEA		-
GO:0005730	nucleolus	IDA		18029348

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
ZHOU INFLAMMATORY RESPONSE FIMA UP	544	308	All SZGR 2.0 genes in this pathway
KOYAMA SEMA3B TARGETS UP	292	168	All SZGR 2.0 genes in this pathway
KOYAMA SEMA3B TARGETS DN	411	249	All SZGR 2.0 genes in this pathway
ACEVEDO LIVER CANCER WITH H3K9ME3 UP	141	75	All SZGR 2.0 genes in this pathway
SMID BREAST CANCER LUMINAL B UP	172	109	All SZGR 2.0 genes in this pathway
SMID BREAST CANCER BASAL DN	701	446	All SZGR 2.0 genes in this pathway
BASSO HAIRY CELL LEUKEMIA DN	80	66	All SZGR 2.0 genes in this pathway
BOQUEST STEM CELL UP	260	174	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
NAKAMURA ADIPOGENESIS LATE UP	104	67	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 30MIN DN	150	99	All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE LATE	1137	655	All SZGR 2.0 genes in this pathway
IKEDA MIR30 TARGETS UP	116	87	All SZGR 2.0 genes in this pathway
RATTENBACHER BOUND BY CELF1	467	251	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	1423	1429	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-101	61	68	1A,m8	hsa-miR-101	UACAGUACUGUGAUAACUGAAG
miR-103/107	631	638	1A,m8	hsa-miR-103^brain	AGCAGCAUUGUACAGGGCUAUGA
miR-103/107	631	638	1A,m8	hsa-miR-107^brain	AGCAGCAUUGUACAGGGCUAUCA
miR-128	1610	1616	1A	hsa-miR-128a	UCACAGUGAACCGGUCUCUUUU
				hsa-miR-128b	UCACAGUGAACCGGUCUCUUUC
				hsa-miR-128a	UCACAGUGAACCGGUCUCUUUU
				hsa-miR-128b	UCACAGUGAACCGGUCUCUUUC
miR-132/212	362	368	1A	hsa-miR-212^SZ	UAACAGUCUCCAGUCACGGCC
				hsa-miR-132^brain	UAACAGUCUACAGCCAUGGUCG
				hsa-miR-212^SZ	UAACAGUCUCCAGUCACGGCC
				hsa-miR-132^brain	UAACAGUCUACAGCCAUGGUCG
miR-137	506	513	1A,m8	hsa-miR-137	UAUUGCUUAAGAAUACGCGUAG
miR-138	274	280	1A	hsa-miR-138^brain	AGCUGGUGUUGUGAAUC
miR-143	1475	1481	1A	hsa-miR-143^brain	UGAGAUGAAGCACUGUAGCUCA
miR-144	62	68	1A	hsa-miR-144	UACAGUAUAGAUGAUGUACUAG
miR-146	1834	1840	m8	hsa-miR-146a	UGAGAACUGAAUUCCAUGGGUU
				hsa-miR-146b^brain	UGAGAACUGAAUUCCAUAGGCU
				hsa-miR-146a	UGAGAACUGAAUUCCAUGGGUU
				hsa-miR-146b^brain	UGAGAACUGAAUUCCAUAGGCU
miR-148/152	733	739	1A	hsa-miR-148a	UCAGUGCACUACAGAACUUUGU
				hsa-miR-152^brain	UCAGUGCAUGACAGAACUUGGG
				hsa-miR-148b	UCAGUGCAUCACAGAACUUUGU
miR-153	108	114	1A	hsa-miR-153	UUGCAUAGUCACAAAAGUGA
miR-155	277	283	m8	hsa-miR-155	UUAAUGCUAAUCGUGAUAGGGG
miR-181	299	306	1A,m8	hsa-miR-181a^brain	AACAUUCAACGCUGUCGGUGAGU
				hsa-miR-181b^SZ	AACAUUCAUUGCUGUCGGUGGG
				hsa-miR-181c^brain	AACAUUCAACCUGUCGGUGAGU
				hsa-miR-181d^brain	AACAUUCAUUGUUGUCGGUGGGUU
				hsa-miR-181a^brain	AACAUUCAACGCUGUCGGUGAGU
				hsa-miR-181b^SZ	AACAUUCAUUGCUGUCGGUGGG
				hsa-miR-181c^brain	AACAUUCAACCUGUCGGUGAGU
				hsa-miR-181d^brain	AACAUUCAUUGUUGUCGGUGGGUU
miR-188	310	316	1A	hsa-miR-188	CAUCCCUUGCAUGGUGGAGGGU
miR-193	763	770	1A,m8	hsa-miR-193a	AACUGGCCUACAAAGUCCCAG
miR-193	763	770	1A,m8	hsa-miR-193b	AACUGGCCCUCAAAGUCCCGCUUU
miR-200bc/429	1128	1134	m8	hsa-miR-200b	UAAUACUGCCUGGUAAUGAUGAC
				hsa-miR-200c	UAAUACUGCCGGGUAAUGAUGG
				hsa-miR-429	UAAUACUGUCUGGUAAAACCGU
miR-203.1	1212	1218	1A	hsa-miR-203	UGAAAUGUUUAGGACCACUAG
miR-203.1	1212	1218	1A	hsa-miR-203	UGAAAUGUUUAGGACCACUAG
miR-204/211	1874	1881	1A,m8	hsa-miR-204^brain	UUCCCUUUGUCAUCCUAUGCCU
miR-204/211	1874	1881	1A,m8	hsa-miR-211	UUCCCUUUGUCAUCCUUCGCCU
miR-208	1389	1395	1A	hsa-miR-208	AUAAGACGAGCAAAAAGCUUGU
miR-217	1384	1390	m8	hsa-miR-217	UACUGCAUCAGGAACUGAUUGGAU
miR-221/222	2066	2073	1A,m8	hsa-miR-221^brain	AGCUACAUUGUCUGCUGGGUUUC
miR-221/222	2066	2073	1A,m8	hsa-miR-222^brain	AGCUACAUCUGGCUACUGGGUCUC
miR-25/32/92/363/367	1687	1693	m8	hsa-miR-25^brain	CAUUGCACUUGUCUCGGUCUGA
				hsa-miR-32	UAUUGCACAUUACUAAGUUGC
				hsa-miR-92	UAUUGCACUUGUCCCGGCCUG
				hsa-miR-367	AAUUGCACUUUAGCAAUGGUGA
				hsa-miR-92b^SZ	UAUUGCACUCGUCCCGGCCUC
miR-26	1713	1719	1A	hsa-miR-26a^brain	UUCAAGUAAUCCAGGAUAGGC
miR-26	1713	1719	1A	hsa-miR-26b^SZ	UUCAAGUAAUUCAGGAUAGGUU
miR-27	1610	1616	m8	hsa-miR-27a^brain	UUCACAGUGGCUAAGUUCCGC
				hsa-miR-27b^brain	UUCACAGUGGCUAAGUUCUGC
				hsa-miR-27a^brain	UUCACAGUGGCUAAGUUCCGC
				hsa-miR-27b^brain	UUCACAGUGGCUAAGUUCUGC
miR-30-5p	577	583	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
miR-338	1416	1422	m8	hsa-miR-338^brain	UCCAGCAUCAGUGAUUUUGUUGA
miR-338	1416	1422	m8	hsa-miR-338^brain	UCCAGCAUCAGUGAUUUUGUUGA
miR-339	307	314	1A,m8	hsa-miR-339	UCCCUGUCCUCCAGGAGCUCA
miR-361	879	885	1A	hsa-miR-361^brain	UUAUCAGAAUCUCCAGGGGUAC
miR-369-3p	2021	2027	1A	hsa-miR-369-3p	AAUAAUACAUGGUUGAUCUUU
miR-374	2021	2027	m8	hsa-miR-374	UUAUAAUACAACCUGAUAAGUG
miR-374	2021	2027	m8	hsa-miR-374	UUAUAAUACAACCUGAUAAGUG
miR-384	459	465	1A	hsa-miR-384	AUUCCUAGAAAUUGUUCAUA
miR-433-3p	1626	1632	1A	hsa-miR-433^brain	AUCAUGAUGGGCUCCUCGGUGU
miR-448	108	114	1A	hsa-miR-448	UUGCAUAUGUAGGAUGUCCCAU
miR-485-5p	1596	1602	m8	hsa-miR-485-5p	AGAGGCUGGCCGUGAUGAAUUC
miR-494	169	176	1A,m8	hsa-miR-494^brain	UGAAACAUACACGGGAAACCUCUU
miR-494	169	176	1A,m8	hsa-miR-494^brain	UGAAACAUACACGGGAAACCUCUU
miR-495	950	956	1A	hsa-miR-495^brain	AAACAAACAUGGUGCACUUCUUU
miR-496	144	150	1A	hsa-miR-496	AUUACAUGGCCAAUCUC
miR-499	1388	1395	1A,m8	hsa-miR-499	UUAAGACUUGCAGUGAUGUUUAA
miR-542-3p	1249	1255	m8	hsa-miR-542-3p	UGUGACAGAUUGAUAACUGAAA
miR-544	72	78	m8	hsa-miR-544	AUUCUGCAUUUUUAGCAAGU
miR-96	858	864	m8	hsa-miR-96^brain	UUUGGCACUAGCACAUUUUUGC
miR-96	858	864	m8	hsa-miR-96^brain	UUUGGCACUAGCACAUUUUUGC

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: NOVA1