SZGR2

Summary ?

GeneID	2107
Symbol	ETF1
Synonyms	D5S1995\|ERF\|ERF1\|RF1\|SUP45L1\|TB3-1
Description	eukaryotic translation termination factor 1
Reference	MIM:600285\|HGNC:HGNC:3477\|Ensembl:ENSG00000120705\|HPRD:02616\|Vega:OTTHUMG00000129199
Gene type	protein-coding
Map location	5q31.1
Pascal p-value	2.412E-7
Sherlock p-value	0.373
Fetal beta	-0.811

Gene in Data Sources

Gene set name	Method of gene set	Description
CV:GWAScat	Genome-wide Association Studies	This data set includes 560 SNPs associated with schizophrenia. A total of 486 genes were mapped to these SNPs within 50kb.
CV:PGC128	Genome-wide Association Study	A multi-stage schizophrenia GWAS of up to 36,989 cases and 113,075 controls. Reported by the Schizophrenia Working Group of PGC. 128 independent associations spanning 108 loci
CV:PGCnp	Genome-wide Association Study	GWAS
GSMA_I	Genome scan meta-analysis	Psr: 0.0032
Expression	Meta-analysis of gene expression	P value: 1.79
Network	Shortest path distance of core genes in the Human protein-protein interaction network	Contribution to shortest path in PPI network: 0.0278

Section I. Genetics and epigenetics annotation

CV:PGC128

SNP ID	Chromosome	Position	Allele	P	Function	Gene	Up/Down Distance
rs3849046	chr5	137851192	TC	4.833E-9	intronic	ETF1

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.

Top co-expressed genes in brain regions

Top 10 positively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
MDS1	1.00	1.00
FLI1	0.82	0.80
ITGA1	0.81	0.82
COBLL1	0.77	0.78
OCLN	0.76	0.78
FGD5	0.75	0.78
ETS1	0.75	0.80
TEK	0.75	0.77
TGFBR2	0.73	0.79
CDH5	0.73	0.73

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
RPS21	-0.38	-0.45
FAM128A	-0.37	-0.35
MRPL52	-0.37	-0.38
SNHG12	-0.36	-0.36
RPL31	-0.36	-0.43
C12orf45	-0.36	-0.37
ATP5E	-0.36	-0.41
BLOC1S1	-0.36	-0.35
ST20	-0.36	-0.36
AC008763.1	-0.35	-0.40

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0003723	RNA binding	TAS		7990965
GO:0005515	protein binding	IPI		9620853 \|9712840
GO:0016149	translation release factor activity, codon specific	IEA		-
GO:0043022	ribosome binding	TAS		12867083
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0006449	regulation of translational termination	TAS		7990965
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005737	cytoplasm	TAS		7990965

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
REACTOME TRANSLATION	222	75	All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF PROTEINS	518	242	All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF MRNA	284	128	All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF RNA	330	155	All SZGR 2.0 genes in this pathway
REACTOME NONSENSE MEDIATED DECAY ENHANCED BY THE EXON JUNCTION COMPLEX	176	57	All SZGR 2.0 genes in this pathway
GARY CD5 TARGETS DN	431	263	All SZGR 2.0 genes in this pathway
DIAZ CHRONIC MEYLOGENOUS LEUKEMIA UP	1382	904	All SZGR 2.0 genes in this pathway
CHARAFE BREAST CANCER LUMINAL VS BASAL DN	455	304	All SZGR 2.0 genes in this pathway
TIEN INTESTINE PROBIOTICS 6HR DN	167	100	All SZGR 2.0 genes in this pathway
TIEN INTESTINE PROBIOTICS 24HR UP	557	331	All SZGR 2.0 genes in this pathway
KINSEY TARGETS OF EWSR1 FLII FUSION UP	1278	748	All SZGR 2.0 genes in this pathway
ELVIDGE HYPOXIA DN	146	94	All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY SERUM DEPRIVATION UP	552	347	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
BERENJENO TRANSFORMED BY RHOA UP	536	340	All SZGR 2.0 genes in this pathway
SCHLOSSER MYC TARGETS REPRESSED BY SERUM	159	93	All SZGR 2.0 genes in this pathway
DIRMEIER LMP1 RESPONSE LATE UP	57	41	All SZGR 2.0 genes in this pathway
SPIELMAN LYMPHOBLAST EUROPEAN VS ASIAN DN	584	395	All SZGR 2.0 genes in this pathway
PUJANA BRCA1 PCC NETWORK	1652	1023	All SZGR 2.0 genes in this pathway
WEI MYCN TARGETS WITH E BOX	795	478	All SZGR 2.0 genes in this pathway
SCIAN INVERSED TARGETS OF TP53 AND TP73 DN	31	23	All SZGR 2.0 genes in this pathway
BENPORATH MYC MAX TARGETS	775	494	All SZGR 2.0 genes in this pathway
SHEPARD CRUSH AND BURN MUTANT UP	197	110	All SZGR 2.0 genes in this pathway
PENG LEUCINE DEPRIVATION DN	187	122	All SZGR 2.0 genes in this pathway
BYSTROEM CORRELATED WITH IL5 UP	51	30	All SZGR 2.0 genes in this pathway
TARTE PLASMA CELL VS PLASMABLAST DN	309	206	All SZGR 2.0 genes in this pathway
BYSTRYKH HEMATOPOIESIS STEM CELL QTL TRANS	882	572	All SZGR 2.0 genes in this pathway
PENG RAPAMYCIN RESPONSE DN	245	154	All SZGR 2.0 genes in this pathway
FLECHNER BIOPSY KIDNEY TRANSPLANT OK VS DONOR UP	555	346	All SZGR 2.0 genes in this pathway
NEMETH INFLAMMATORY RESPONSE LPS UP	88	64	All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS LATE PROGENITOR	544	307	All SZGR 2.0 genes in this pathway
SESTO RESPONSE TO UV C1	72	45	All SZGR 2.0 genes in this pathway
MONNIER POSTRADIATION TUMOR ESCAPE UP	393	244	All SZGR 2.0 genes in this pathway
HOWLIN CITED1 TARGETS 2 DN	17	11	All SZGR 2.0 genes in this pathway
MARSON BOUND BY FOXP3 STIMULATED	1022	619	All SZGR 2.0 genes in this pathway
FOSTER TOLERANT MACROPHAGE UP	156	92	All SZGR 2.0 genes in this pathway
ACEVEDO LIVER TUMOR VS NORMAL ADJACENT TISSUE UP	863	514	All SZGR 2.0 genes in this pathway
YAGI AML WITH INV 16 TRANSLOCATION	422	277	All SZGR 2.0 genes in this pathway
MARSON FOXP3 TARGETS DN	54	38	All SZGR 2.0 genes in this pathway
GUTIERREZ MULTIPLE MYELOMA UP	35	24	All SZGR 2.0 genes in this pathway
DANG BOUND BY MYC	1103	714	All SZGR 2.0 genes in this pathway
YAO TEMPORAL RESPONSE TO PROGESTERONE CLUSTER 7	76	46	All SZGR 2.0 genes in this pathway
THILLAINADESAN ZNF217 TARGETS UP	44	22	All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE VIA TP53 GROUP C	92	60	All SZGR 2.0 genes in this pathway
LEE BMP2 TARGETS DN	882	538	All SZGR 2.0 genes in this pathway
HUANG GATA2 TARGETS DN	72	52	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-124.1	88	94	m8	hsa-miR-124a	UUAAGGCACGCGGUGAAUGCCA
miR-124/506	88	94	1A	hsa-miR-506	UAAGGCACCCUUCUGAGUAGA
miR-124/506	88	94	1A	hsa-miR-124^brain	UAAGGCACGCGGUGAAUGCC
miR-134	1481	1487	m8	hsa-miR-134^brain	UGUGACUGGUUGACCAGAGGG
miR-136	2177	2184	1A,m8	hsa-miR-136	ACUCCAUUUGUUUUGAUGAUGGA
miR-150	832	839	1A,m8	hsa-miR-150	UCUCCCAACCCUUGUACCAGUG
miR-17-5p/20/93.mr/106/519.d	1442	1448	1A	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-181	962	968	m8	hsa-miR-181a^brain	AACAUUCAACGCUGUCGGUGAGU
				hsa-miR-181b^SZ	AACAUUCAUUGCUGUCGGUGGG
				hsa-miR-181c^brain	AACAUUCAACCUGUCGGUGAGU
				hsa-miR-181d^brain	AACAUUCAUUGUUGUCGGUGGGUU
miR-182	1966	1972	1A	hsa-miR-182	UUUGGCAAUGGUAGAACUCACA
miR-186	1982	1988	1A	hsa-miR-186	CAAAGAAUUCUCCUUUUGGGCUU
miR-200bc/429	2187	2193	1A	hsa-miR-200b	UAAUACUGCCUGGUAAUGAUGAC
				hsa-miR-200c	UAAUACUGCCGGGUAAUGAUGG
				hsa-miR-429	UAAUACUGUCUGGUAAAACCGU
miR-205	1349	1355	1A	hsa-miR-205	UCCUUCAUUCCACCGGAGUCUG
miR-205	1349	1355	1A	hsa-miR-205	UCCUUCAUUCCACCGGAGUCUG
miR-216	952	959	1A,m8	hsa-miR-216	UAAUCUCAGCUGGCAACUGUG
miR-23	959	965	1A	hsa-miR-23a^brain	AUCACAUUGCCAGGGAUUUCC
miR-23	959	965	1A	hsa-miR-23b^brain	AUCACAUUGCCAGGGAUUACC
miR-26	1564	1570	1A	hsa-miR-26a^brain	UUCAAGUAAUCCAGGAUAGGC
miR-26	1564	1570	1A	hsa-miR-26b^SZ	UUCAAGUAAUUCAGGAUAGGUU
miR-299-5p	2192	2198	1A	hsa-miR-299-5p	UGGUUUACCGUCCCACAUACAU
miR-299-5p	2192	2198	1A	hsa-miR-299-5p	UGGUUUACCGUCCCACAUACAU
miR-320	1492	1498	1A	hsa-miR-320	AAAAGCUGGGUUGAGAGGGCGAA
miR-324-3p	447	453	1A	hsa-miR-324-3p	CCACUGCCCCAGGUGCUGCUGG
miR-326	1849	1855	1A	hsa-miR-326	CCUCUGGGCCCUUCCUCCAG
miR-329	2034	2040	1A	hsa-miR-329^brain	AACACACCUGGUUAACCUCUUU
miR-330	1733	1739	m8	hsa-miR-330^brain	GCAAAGCACACGGCCUGCAGAGA
miR-335	292	298	m8	hsa-miR-335^brain	UCAAGAGCAAUAACGAAAAAUGU
miR-34b	1536	1542	1A	hsa-miR-34b	UAGGCAGUGUCAUUAGCUGAUUG
miR-381	295	301	m8	hsa-miR-381	UAUACAAGGGCAAGCUCUCUGU
miR-410	2022	2028	1A	hsa-miR-410	AAUAUAACACAGAUGGCCUGU
miR-490	1523	1530	1A,m8	hsa-miR-490	CAACCUGGAGGACUCCAUGCUG
miR-493-5p	2168	2174	m8	hsa-miR-493-5p	UUGUACAUGGUAGGCUUUCAUU
miR-496	1590	1596	1A	hsa-miR-496	AUUACAUGGCCAAUCUC
miR-496	1590	1596	1A	hsa-miR-496	AUUACAUGGCCAAUCUC
miR-505	545	551	1A	hsa-miR-505	GUCAACACUUGCUGGUUUCCUC
miR-543	963	969	m8	hsa-miR-543	AAACAUUCGCGGUGCACUUCU
miR-544	1756	1762	m8	hsa-miR-544	AUUCUGCAUUUUUAGCAAGU
miR-96	1966	1972	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: ETF1