Gene Page: LSM7

Summary ?
GeneID51690
SymbolLSM7
SynonymsYNL147W
DescriptionLSM7 homolog, U6 small nuclear RNA and mRNA degradation associated
ReferenceMIM:607287|HGNC:HGNC:20470|Ensembl:ENSG00000130332|HPRD:06287|Vega:OTTHUMG00000180441
Gene typeprotein-coding
Map location19p13.3
Pascal p-value0.313
Sherlock p-value0.99
Fetal beta1.041
DMG1 (# studies)
eGeneCaudate basal ganglia
Cerebellar Hemisphere
Cerebellum
Cortex
Frontal Cortex BA9
Meta

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
DMG:vanEijk_2014Genome-wide DNA methylation analysisThis dataset includes 432 differentially methylated CpG sites corresponding to 391 unique transcripts between schizophrenia patients (n=260) and unaffected controls (n=250). 1
NetworkShortest path distance of core genes in the Human protein-protein interaction networkContribution to shortest path in PPI network: 0.0139 

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg01129847192281919LSM77.134E-44.293DMG:vanEijk_2014


Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

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 functionGO termEvidenceNeuro keywordsPubMed ID
GO:0003723RNA bindingIEA-
GO:0005515protein bindingIPI12165861 |15231747 
GO:0017070U6 snRNA bindingNAS10523320 
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0000398nuclear mRNA splicing, via spliceosomeNAS-
GO:0008380RNA splicingIEA-
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0005634nucleusNAS-
GO:0030529ribonucleoprotein complexIEA-

Section IV. Protein-protein interaction annotation

InteractorsAliases BOfficial full name BExperimentalSourcePubMed ID
EXOSC6EAP4 | MTR3 | Mtr3p | hMtr3p | p11exosome component 6Two-hybridBioGRID15231747 
EXOSC8CIP3 | EAP2 | OIP2 | RP11-421P11.3 | RRP43 | Rrp43p | bA421P11.3 | p9exosome component 8-HPRD,BioGRID15231747 
LSM1CASM | YJL124CLSM1 homolog, U6 small nuclear RNA associated (S. cerevisiae)-HPRD11920408 
LSM2C6orf28 | G7b | YBL026W | snRNPLSM2 homolog, U6 small nuclear RNA associated (S. cerevisiae)Two-hybridBioGRID14667819 |15231747 
LSM2C6orf28 | G7b | YBL026W | snRNPLSM2 homolog, U6 small nuclear RNA associated (S. cerevisiae)-HPRD11920408 |15231747 
LSM3SMX4 | USS2 | YLR438CLSM3 homolog, U6 small nuclear RNA associated (S. cerevisiae)-HPRD,BioGRID11920408 |15231747 
LSM4YER112WLSM4 homolog, U6 small nuclear RNA associated (S. cerevisiae)-HPRD,BioGRID11920408 
LSM5FLJ12710 | YER146WLSM5 homolog, U6 small nuclear RNA associated (S. cerevisiae)-HPRD11920408 
LSM6YDR378CLSM6 homolog, U6 small nuclear RNA associated (S. cerevisiae)-HPRD11920408 
LSM8YJR022WLSM8 homolog, U6 small nuclear RNA associated (S. cerevisiae)-HPRD11920408 
MYH13MyHC-eomyosin, heavy chain 13, skeletal muscle-HPRD,BioGRID15231747 
NPY1RNPYRneuropeptide Y receptor Y1-HPRD,BioGRID15231747 
RAB7L1DKFZp686P1051 | RAB7LRAB7, member RAS oncogene family-like 1Two-hybridBioGRID15231747 
SART3DSAP1 | KIAA0156 | MGC138188 | P100 | RP11-13G14 | TIP110 | p110 | p110(nrb)squamous cell carcinoma antigen recognized by T cells 3FRETBioGRID15452143 
SMN1BCD541 | SMA | SMA1 | SMA2 | SMA3 | SMA4 | SMA@ | SMN | SMNT | T-BCD541survival of motor neuron 1, telomeric-HPRD,BioGRID10851237 
SNRPD3SMD3small nuclear ribonucleoprotein D3 polypeptide 18kDa-HPRD,BioGRID15231747 
TACC1DKFZp686K18126 | Ga55 | KIAA1103transforming, acidic coiled-coil containing protein 1-HPRD,BioGRID12165861 


Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG RNA DEGRADATION 5937All SZGR 2.0 genes in this pathway
KEGG SPLICEOSOME 12872All SZGR 2.0 genes in this pathway
GAZDA DIAMOND BLACKFAN ANEMIA MYELOID DN 3825All SZGR 2.0 genes in this pathway
ZHONG RESPONSE TO AZACITIDINE AND TSA DN 7038All SZGR 2.0 genes in this pathway
TIEN INTESTINE PROBIOTICS 24HR UP 557331All SZGR 2.0 genes in this pathway
WAMUNYOKOLI OVARIAN CANCER LMP UP 265158All SZGR 2.0 genes in this pathway
PROVENZANI METASTASIS UP 194112All SZGR 2.0 genes in this pathway
CONCANNON APOPTOSIS BY EPOXOMICIN DN 172112All SZGR 2.0 genes in this pathway
SCHLOSSER MYC TARGETS AND SERUM RESPONSE UP 4732All SZGR 2.0 genes in this pathway
MARTORIATI MDM4 TARGETS FETAL LIVER UP 227137All SZGR 2.0 genes in this pathway
PUJANA BRCA1 PCC NETWORK 16521023All SZGR 2.0 genes in this pathway
PUJANA CHEK2 PCC NETWORK 779480All SZGR 2.0 genes in this pathway
KAAB FAILED HEART ATRIUM DN 14199All SZGR 2.0 genes in this pathway
DOUGLAS BMI1 TARGETS UP 566371All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 6HR DN 911527All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 24HR DN 1011592All SZGR 2.0 genes in this pathway
RIZKI TUMOR INVASIVENESS 2D UP 6946All SZGR 2.0 genes in this pathway
ZHANG BREAST CANCER PROGENITORS UP 425253All SZGR 2.0 genes in this pathway
MUELLER PLURINET 299189All SZGR 2.0 genes in this pathway
YAO TEMPORAL RESPONSE TO PROGESTERONE CLUSTER 17 181101All SZGR 2.0 genes in this pathway
KIM ALL DISORDERS OLIGODENDROCYTE NUMBER CORR UP 756494All SZGR 2.0 genes in this pathway
CHICAS RB1 TARGETS LOW SERUM 10051All SZGR 2.0 genes in this pathway
LU EZH2 TARGETS UP 295155All SZGR 2.0 genes in this pathway
RATTENBACHER BOUND BY CELF1 467251All SZGR 2.0 genes in this pathway
HOLLEMAN VINCRISTINE RESISTANCE ALL DN 1911All SZGR 2.0 genes in this pathway