SZGR2

Summary ?

GeneID	27327
Symbol	TNRC6A
Synonyms	CAGH26\|GW1\|GW182\|TNRC6
Description	trinucleotide repeat containing 6A
Reference	MIM:610739\|HGNC:HGNC:11969\|Ensembl:ENSG00000090905\|HPRD:11640\|Vega:OTTHUMG00000096999
Gene type	protein-coding
Map location	16p11.2
Pascal p-value	0.036
Sherlock p-value	0.394
eGene	Myers' cis & trans Meta

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:PGCnp	Genome-wide Association Study	GWAS
GSMA_IIE	Genome scan meta-analysis (European-ancestry samples)	Psr: 0.01775

Section I. Genetics and epigenetics annotation

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	qvalue	eQTL type
rs1465423	chr16	24772679	TNRC6A	27327	0.1	cis
rs2112783	chr16	24812511	TNRC6A	27327	0.09	cis
rs12930727	chr16	24838496	TNRC6A	27327	0.18	cis
rs16829545	chr2	151977407	TNRC6A	27327	1.632E-4	trans
rs7584986	chr2	184111432	TNRC6A	27327	0.1	trans
rs16955618	chr15	29937543	TNRC6A	27327	1.052E-4	trans

Section II. Transcriptome annotation

General gene expression (GTEx)

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:0000166	nucleotide binding	IEA		-
GO:0003723	RNA binding	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005737	cytoplasm	IEA		-

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
REACTOME PRE NOTCH TRANSCRIPTION AND TRANSLATION	29	17	All SZGR 2.0 genes in this pathway
REACTOME PRE NOTCH EXPRESSION AND PROCESSING	44	24	All SZGR 2.0 genes in this pathway
REACTOME REGULATORY RNA PATHWAYS	26	12	All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY NOTCH	103	64	All SZGR 2.0 genes in this pathway
LIU PROSTATE CANCER DN	481	290	All SZGR 2.0 genes in this pathway
ODONNELL TFRC TARGETS DN	139	76	All SZGR 2.0 genes in this pathway
MARKEY RB1 ACUTE LOF DN	228	137	All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN DN	1781	1082	All SZGR 2.0 genes in this pathway
GAUSSMANN MLL AF4 FUSION TARGETS A UP	191	128	All SZGR 2.0 genes in this pathway
SILIGAN BOUND BY EWS FLT1 FUSION	47	34	All SZGR 2.0 genes in this pathway
GROSS HYPOXIA VIA ELK3 UP	209	139	All SZGR 2.0 genes in this pathway
GROSS HYPOXIA VIA HIF1A UP	77	49	All SZGR 2.0 genes in this pathway
GROSS HYPOXIA VIA ELK3 AND HIF1A DN	103	71	All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 6HR DN	514	330	All SZGR 2.0 genes in this pathway
BENPORATH NANOG TARGETS	988	594	All SZGR 2.0 genes in this pathway
BENPORATH OCT4 TARGETS	290	172	All SZGR 2.0 genes in this pathway
BENPORATH SOX2 TARGETS	734	436	All SZGR 2.0 genes in this pathway
BENPORATH NOS TARGETS	179	105	All SZGR 2.0 genes in this pathway
CHEN NEUROBLASTOMA COPY NUMBER GAINS	50	35	All SZGR 2.0 genes in this pathway
BILD HRAS ONCOGENIC SIGNATURE	261	166	All SZGR 2.0 genes in this pathway
DOUGLAS BMI1 TARGETS UP	566	371	All SZGR 2.0 genes in this pathway
MARTINEZ RB1 TARGETS DN	543	317	All SZGR 2.0 genes in this pathway
MARTINEZ TP53 TARGETS DN	593	372	All SZGR 2.0 genes in this pathway
MARTINEZ RB1 AND TP53 TARGETS DN	591	366	All SZGR 2.0 genes in this pathway
WANG TUMOR INVASIVENESS UP	374	247	All SZGR 2.0 genes in this pathway
ZHANG TLX TARGETS 60HR DN	277	166	All SZGR 2.0 genes in this pathway
CHIANG LIVER CANCER SUBCLASS UNANNOTATED UP	85	50	All SZGR 2.0 genes in this pathway
PILON KLF1 TARGETS DN	1972	1213	All SZGR 2.0 genes in this pathway
IKEDA MIR30 TARGETS UP	116	87	All SZGR 2.0 genes in this pathway
PECE MAMMARY STEM CELL DN	146	88	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-101	1284	1290	1A	hsa-miR-101	UACAGUACUGUGAUAACUGAAG
miR-122	206	212	m8	hsa-miR-122a	UGGAGUGUGACAAUGGUGUUUGU
miR-129-5p	1068	1074	1A	hsa-miR-129^brain	CUUUUUGCGGUCUGGGCUUGC
				hsa-miR-129-5p	CUUUUUGCGGUCUGGGCUUGCU
				hsa-miR-129^brain	CUUUUUGCGGUCUGGGCUUGC
				hsa-miR-129-5p	CUUUUUGCGGUCUGGGCUUGCU
				hsa-miR-129^brain	CUUUUUGCGGUCUGGGCUUGC
				hsa-miR-129-5p	CUUUUUGCGGUCUGGGCUUGCU
miR-130/301	392	398	m8	hsa-miR-130a^brain	CAGUGCAAUGUUAAAAGGGCAU
				hsa-miR-301	CAGUGCAAUAGUAUUGUCAAAGC
				hsa-miR-130b^brain	CAGUGCAAUGAUGAAAGGGCAU
				hsa-miR-454-3p	UAGUGCAAUAUUGCUUAUAGGGUUU
miR-139	1830	1836	m8	hsa-miR-139^brain	UCUACAGUGCACGUGUCU
miR-143	1924	1930	1A	hsa-miR-143^brain	UGAGAUGAAGCACUGUAGCUCA
miR-144	1283	1290	1A,m8	hsa-miR-144	UACAGUAUAGAUGAUGUACUAG
miR-146	935	941	1A	hsa-miR-146a	UGAGAACUGAAUUCCAUGGGUU
miR-146	935	941	1A	hsa-miR-146b^brain	UGAGAACUGAAUUCCAUAGGCU
miR-148/152	1026	1032	1A	hsa-miR-148a	UCAGUGCACUACAGAACUUUGU
				hsa-miR-152^brain	UCAGUGCAUGACAGAACUUGGG
				hsa-miR-148b	UCAGUGCAUCACAGAACUUUGU
				hsa-miR-148a	UCAGUGCACUACAGAACUUUGU
				hsa-miR-152^brain	UCAGUGCAUGACAGAACUUGGG
				hsa-miR-148b	UCAGUGCAUCACAGAACUUUGU
miR-150	2362	2368	m8	hsa-miR-150	UCUCCCAACCCUUGUACCAGUG
miR-153	1277	1283	m8	hsa-miR-153	UUGCAUAGUCACAAAAGUGA
miR-17-5p/20/93.mr/106/519.d	692	698	m8	hsa-miR-17-5p	CAAAGUGCUUACAGUGCAGGUAGU
				hsa-miR-20a^brain	UAAAGUGCUUAUAGUGCAGGUAG
				hsa-miR-106a	AAAAGUGCUUACAGUGCAGGUAGC
				hsa-miR-106b^SZ	UAAAGUGCUGACAGUGCAGAU
				hsa-miR-20b^SZ	CAAAGUGCUCAUAGUGCAGGUAG
				hsa-miR-519d	CAAAGUGCCUCCCUUUAGAGUGU
miR-182	1065	1071	1A	hsa-miR-182	UUUGGCAAUGGUAGAACUCACA
miR-19	391	397	m8	hsa-miR-19a	UGUGCAAAUCUAUGCAAAACUGA
miR-19	391	397	m8	hsa-miR-19b	UGUGCAAAUCCAUGCAAAACUGA
miR-190	138	145	1A,m8	hsa-miR-190	UGAUAUGUUUGAUAUAUUAGGU
miR-23	1811	1817	m8	hsa-miR-23a^brain	AUCACAUUGCCAGGGAUUUCC
				hsa-miR-23b^brain	AUCACAUUGCCAGGGAUUACC
				hsa-miR-23a^brain	AUCACAUUGCCAGGGAUUUCC
				hsa-miR-23b^brain	AUCACAUUGCCAGGGAUUACC
miR-26	153	160	1A,m8	hsa-miR-26a^brain	UUCAAGUAAUCCAGGAUAGGC
miR-26	153	160	1A,m8	hsa-miR-26b^SZ	UUCAAGUAAUUCAGGAUAGGUU
miR-299-5p	1626	1632	1A	hsa-miR-299-5p	UGGUUUACCGUCCCACAUACAU
miR-30-5p	455	461	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
				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
				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-31	2139	2145	1A	hsa-miR-31	AGGCAAGAUGCUGGCAUAGCUG
miR-323	1810	1817	1A,m8	hsa-miR-323^brain	GCACAUUACACGGUCGACCUCU
miR-323	1810	1817	1A,m8	hsa-miR-323^brain	GCACAUUACACGGUCGACCUCU
miR-330	2248	2254	1A	hsa-miR-330^brain	GCAAAGCACACGGCCUGCAGAGA
miR-330	2248	2254	1A	hsa-miR-330^brain	GCAAAGCACACGGCCUGCAGAGA
miR-342	1813	1819	1A	hsa-miR-342^brain	UCUCACACAGAAAUCGCACCCGUC
miR-369-3p	174	180	1A	hsa-miR-369-3p	AAUAAUACAUGGUUGAUCUUU
miR-369-3p	174	180	1A	hsa-miR-369-3p	AAUAAUACAUGGUUGAUCUUU
miR-374	1413	1420	1A,m8	hsa-miR-374	UUAUAAUACAACCUGAUAAGUG
miR-374	1413	1420	1A,m8	hsa-miR-374	UUAUAAUACAACCUGAUAAGUG
miR-378	939	945	1A	hsa-miR-378	CUCCUGACUCCAGGUCCUGUGU
miR-381	1321	1327	1A	hsa-miR-381	UAUACAAGGGCAAGCUCUCUGU
miR-452	1348	1354	m8	hsa-miR-452	UGUUUGCAGAGGAAACUGAGAC
miR-485-3p	2114	2120	m8	hsa-miR-485-3p	GUCAUACACGGCUCUCCUCUCU
miR-485-5p	1931	1937	1A	hsa-miR-485-5p	AGAGGCUGGCCGUGAUGAAUUC
miR-495	763	769	m8	hsa-miR-495^brain	AAACAAACAUGGUGCACUUCUUU
miR-7	793	799	1A	hsa-miR-7^SZ	UGGAAGACUAGUGAUUUUGUUG
miR-9	2238	2244	m8	hsa-miR-9^SZ	UCUUUGGUUAUCUAGCUGUAUGA
miR-96	1065	1071	1A	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: TNRC6A