SZGR2

Summary ?

GeneID	23658
Symbol	LSM5
Synonyms	YER146W
Description	LSM5 homolog, U6 small nuclear RNA and mRNA degradation associated
Reference	MIM:607285\|HGNC:HGNC:17162\|Ensembl:ENSG00000106355\|HPRD:06285\|Vega:OTTHUMG00000022913
Gene type	protein-coding
Map location	7p14.3
Pascal p-value	0.048
Sherlock p-value	0.304

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:PGCnp	Genome-wide Association Study	GWAS
Network	Shortest path distance of core genes in the Human protein-protein interaction network	Contribution to shortest path in PPI network: 0.0139

Section I. Genetics and epigenetics annotation

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:0003723	RNA binding	TAS		10369684
GO:0005515	protein binding	IPI		15231747
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0006397	mRNA processing	TAS		10369684
GO:0008380	RNA splicing	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005634	nucleus	TAS		10369684
GO:0030529	ribonucleoprotein complex	IEA		-

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
EXOSC5	MGC111224 \| MGC12901 \| RRP41B \| RRP46 \| Rrp46p \| hRrp46p \| p12B	exosome component 5	-	HPRD,BioGRID	15231747
HNRNPD	AUF1 \| AUF1A \| HNRPD \| P37 \| hnRNPD0	heterogeneous nuclear ribonucleoprotein D (AU-rich element RNA binding protein 1, 37kDa)	-	HPRD,BioGRID	15231747
LSM1	CASM \| YJL124C	LSM1 homolog, U6 small nuclear RNA associated (S. cerevisiae)	-	HPRD	11920408
LSM2	C6orf28 \| G7b \| YBL026W \| snRNP	LSM2 homolog, U6 small nuclear RNA associated (S. cerevisiae)	-	HPRD	11920408
LSM3	SMX4 \| USS2 \| YLR438C	LSM3 homolog, U6 small nuclear RNA associated (S. cerevisiae)	-	HPRD	11920408
LSM4	YER112W	LSM4 homolog, U6 small nuclear RNA associated (S. cerevisiae)	-	HPRD	11920408
LSM6	YDR378C	LSM6 homolog, U6 small nuclear RNA associated (S. cerevisiae)	-	HPRD	11920408
LSM7	YNL147W	LSM7 homolog, U6 small nuclear RNA associated (S. cerevisiae)	-	HPRD	11920408
LSM8	YJR022W	LSM8 homolog, U6 small nuclear RNA associated (S. cerevisiae)	-	HPRD	11920408
SMN1	BCD541 \| SMA \| SMA1 \| SMA2 \| SMA3 \| SMA4 \| SMA@ \| SMN \| SMNT \| T-BCD541	survival of motor neuron 1, telomeric	-	HPRD	10851237
SNRPE	B-raf \| SME	small nuclear ribonucleoprotein polypeptide E	-	HPRD,BioGRID	15231747
SNRPF	SMF	small nuclear ribonucleoprotein polypeptide F	-	HPRD,BioGRID	15231747

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG RNA DEGRADATION	59	37	All SZGR 2.0 genes in this pathway
KEGG SPLICEOSOME	128	72	All SZGR 2.0 genes in this pathway
REACTOME MRNA DECAY BY 5 TO 3 EXORIBONUCLEASE	15	10	All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF MRNA	284	128	All SZGR 2.0 genes in this pathway
REACTOME DEADENYLATION DEPENDENT MRNA DECAY	48	29	All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF RNA	330	155	All SZGR 2.0 genes in this pathway
ONKEN UVEAL MELANOMA DN	526	357	All SZGR 2.0 genes in this pathway
GAZDA DIAMOND BLACKFAN ANEMIA PROGENITOR DN	66	42	All SZGR 2.0 genes in this pathway
SENGUPTA NASOPHARYNGEAL CARCINOMA WITH LMP1 UP	408	247	All SZGR 2.0 genes in this pathway
DIAZ CHRONIC MEYLOGENOUS LEUKEMIA UP	1382	904	All SZGR 2.0 genes in this pathway
DEURIG T CELL PROLYMPHOCYTIC LEUKEMIA UP	368	234	All SZGR 2.0 genes in this pathway
WANG LMO4 TARGETS UP	372	227	All SZGR 2.0 genes in this pathway
HOEBEKE LYMPHOID STEM CELL DN	86	59	All SZGR 2.0 genes in this pathway
RHEIN ALL GLUCOCORTICOID THERAPY DN	362	238	All SZGR 2.0 genes in this pathway
DITTMER PTHLH TARGETS UP	112	68	All SZGR 2.0 genes in this pathway
TIEN INTESTINE PROBIOTICS 24HR UP	557	331	All SZGR 2.0 genes in this pathway
KIM WT1 TARGETS DN	459	276	All SZGR 2.0 genes in this pathway
KIM WT1 TARGETS 12HR DN	209	122	All SZGR 2.0 genes in this pathway
GRAHAM CML DIVIDING VS NORMAL QUIESCENT UP	181	101	All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA DN	1375	806	All SZGR 2.0 genes in this pathway
XU HGF TARGETS INDUCED BY AKT1 6HR	19	8	All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 DN	855	609	All SZGR 2.0 genes in this pathway
JAZAG TGFB1 SIGNALING UP	108	69	All SZGR 2.0 genes in this pathway
PUJANA BRCA1 PCC NETWORK	1652	1023	All SZGR 2.0 genes in this pathway
PUJANA CHEK2 PCC NETWORK	779	480	All SZGR 2.0 genes in this pathway
NUYTTEN EZH2 TARGETS DN	1024	594	All SZGR 2.0 genes in this pathway
FERREIRA EWINGS SARCOMA UNSTABLE VS STABLE UP	167	92	All SZGR 2.0 genes in this pathway
BENPORATH NANOG TARGETS	988	594	All SZGR 2.0 genes in this pathway
MOREAUX B LYMPHOCYTE MATURATION BY TACI DN	73	45	All SZGR 2.0 genes in this pathway
MOREAUX MULTIPLE MYELOMA BY TACI DN	172	107	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE INCIPIENT UP	390	242	All SZGR 2.0 genes in this pathway
DEBIASI APOPTOSIS BY REOVIRUS INFECTION UP	314	201	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE DN	1237	837	All SZGR 2.0 genes in this pathway
WANG SMARCE1 TARGETS DN	371	218	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP	1691	1088	All SZGR 2.0 genes in this pathway
ZHENG BOUND BY FOXP3	491	310	All SZGR 2.0 genes in this pathway
MARSON BOUND BY FOXP3 UNSTIMULATED	1229	713	All SZGR 2.0 genes in this pathway
MARSON BOUND BY E2F4 UNSTIMULATED	728	415	All SZGR 2.0 genes in this pathway
ZHANG BREAST CANCER PROGENITORS UP	425	253	All SZGR 2.0 genes in this pathway
WEST ADRENOCORTICAL TUMOR UP	294	199	All SZGR 2.0 genes in this pathway
BLUM RESPONSE TO SALIRASIB DN	342	220	All SZGR 2.0 genes in this pathway
MUELLER PLURINET	299	189	All SZGR 2.0 genes in this pathway
WONG EMBRYONIC STEM CELL CORE	335	193	All SZGR 2.0 genes in this pathway
MARTENS TRETINOIN RESPONSE DN	841	431	All SZGR 2.0 genes in this pathway
PILON KLF1 TARGETS DN	1972	1213	All SZGR 2.0 genes in this pathway
JOHNSTONE PARVB TARGETS 3 DN	918	550	All SZGR 2.0 genes in this pathway
FEVR CTNNB1 TARGETS DN	553	343	All SZGR 2.0 genes in this pathway
GOBERT OLIGODENDROCYTE DIFFERENTIATION UP	570	339	All SZGR 2.0 genes in this pathway
BOUDOUKHA BOUND BY IGF2BP2	111	59	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-204/211	112	119	1A,m8	hsa-miR-204^brain	UUCCCUUUGUCAUCCUAUGCCU
miR-204/211	112	119	1A,m8	hsa-miR-211	UUCCCUUUGUCAUCCUUCGCCU

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: LSM5