LSM2 (LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated)

2016-08-01 Affiliation

Identity

HGNC

LSM2

LOCATION

6p21.33

LOCUSID

57819

ALIAS

C6orf28,G7B,YBL026W,snRNP

Non-annotated gene. Preliminary data : if you are an author who wish to write a full paper/card on this gene, contribute in submission tool

Other Information

Locus ID:

NCBI: 57819
MIM: 607282
HGNC: 13940
Ensembl: ENSG00000204392

Variants:

dbSNP: 57819
ClinVar: 57819
TCGA: ENSG00000204392
COSMIC: LSM2

RNA/Proteins

Gene ID	Transcript ID	Uniprot
ENSG00000204392	ENST00000375661	Q9Y333

Expression (GTEx)

100

150

200

Adipose - Subcutaneous

Adipose - Visceral

Adrenal Gland

Artery - Aorta

Artery - Tibial

Bladder

Brain - Amygdala

Brain - Anterior cingulate cortex

Brain - Caudate

Brain - Cerebellar Hemisphere

Brain - Cerebellum

Brain - Cortex

Brain - Frontal Cortex

Brain - Hippocampus

Brain - Hypothalamus

Brain - Nucleus accumbens

Brain - Putamen

Brain - Spinal cord

Brain - Substantia nigra

Breast - Mammary Tissue

Cells - Cultured fibroblasts

Cells - EBV - transformed lymphocytes

Cervix - Ectocervix

Cervix - Endocervix

Colon - Sigmoid

Colon - Transverse

Esophagus - Gastroesophageal Junction

Esophagus - Mucosa

Esophagus - Muscularis

Fallopian Tube

Heart - Atrial Appendage

Heart - Left Ventricle

Kidney - Cortex

Kidney - Medulla

Liver

Lung

Minor Salivary Gland

Muscle - Skeletal

Nerve - Tibial

Ovary

Pancreas

Pituitary

Prostate

Skin - Not Sun Exposed

Skin - Sun Exposed

Small Intestine - Terminal Ileum

Spleen

Stomach

Testis

Thyroid

Uterus

Vagina

Whole Blood

Pathways

Pathway	Source	External ID
RNA degradation	KEGG	ko03018
RNA degradation	KEGG	hsa03018
Spliceosome	KEGG	ko03040
Spliceosome	KEGG	hsa03040
Spliceosome, U4/U6.U5 tri-snRNP	KEGG	hsa_M00354
Lsm 2-8 complex	KEGG	hsa_M00396
Lsm 1-7 complex	KEGG	hsa_M00397
Spliceosome, U4/U6.U5 tri-snRNP	KEGG	M00354
Lsm 2-8 complex	KEGG	M00396
Lsm 1-7 complex	KEGG	M00397
Gene Expression	REACTOME	R-HSA-74160
Processing of Capped Intron-Containing Pre-mRNA	REACTOME	R-HSA-72203
mRNA Splicing	REACTOME	R-HSA-72172
mRNA Splicing - Major Pathway	REACTOME	R-HSA-72163
mRNA Splicing - Minor Pathway	REACTOME	R-HSA-72165
Deadenylation-dependent mRNA decay	REACTOME	R-HSA-429914
mRNA decay by 5' to 3' exoribonuclease	REACTOME	R-HSA-430039

Protein levels (Protein atlas)

Not detected

Low

Medium

High

References

Pubmed ID	Year	Title	Citations
12515382	2002	The human LSm1-7 proteins colocalize with the mRNA-degrading enzymes Dcp1/2 and Xrnl in distinct cytoplasmic foci.	181
19913121	2009	Gene-centric association signals for lipids and apolipoproteins identified via the HumanCVD BeadChip.	85
19851445	2009	High-density SNP screening of the major histocompatibility complex in systemic lupus erythematosus demonstrates strong evidence for independent susceptibility regions.	51
20628086	2010	Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study.	11
18095154	2008	Use of expression data and the CGEMS genome-wide breast cancer association study to identify genes that may modify risk in BRCA1/2 mutation carriers.	9
26261020	2015	Small nuclear ribonucleoprotein associated polypeptide N accelerates cell proliferation in pancreatic adenocarcinoma.	1

Citation

Dessen P

LSM2 (LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated)

Atlas Genet Cytogenet Oncol Haematol. 2016-08-01

Online version: http://atlasgeneticsoncology.org/gene/55839/lsm2