Gene Page:LSM5

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

部分即遗传学和表观遗传学注释


Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

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 新闻学会 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 苏rce 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细胞PROLYMPHOCYTIC白血病 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
UTR start UTR end Match method
miR-204/211 112 119 1A,m8 hsa-miR-204brain UUCCCUUUGUCAUCCUAUGCCU
hsa-miR-211 UUCCCUUUGUCAUCCUUCGCCU