Details for: LSM3

Gene ID: 27258

Symbol: LSM3

Ensembl ID: ENSG00000170860

Description: LSM3 homolog, U6 small nuclear RNA and mRNA degradation associated

Associated with

Cells (max top 100)

(Cell Significance Index and respective Thresholds are uniquely calculated using our advanced thresholding algorithms to reveal cell-specific gene markers)

  • Cell Name: polychromatophilic erythroblast (CL0000550)
    Fold Change: 264.2318
    Cell Significance Index: -41.1000
  • Cell Name: hematopoietic oligopotent progenitor cell (CL0002032)
    Fold Change: 186.4232
    Cell Significance Index: -47.2900
  • Cell Name: embryonic stem cell (CL0002322)
    Fold Change: 164.2685
    Cell Significance Index: -67.6700
  • Cell Name: smooth muscle fiber of ileum (CL1000278)
    Fold Change: 140.5355
    Cell Significance Index: -66.3500
  • Cell Name: peripheral blood mononuclear cell (CL2000001)
    Fold Change: 122.7679
    Cell Significance Index: -63.1500
  • Cell Name: ileal goblet cell (CL1000326)
    Fold Change: 99.3857
    Cell Significance Index: -66.6900
  • Cell Name: orthochromatic erythroblast (CL0000552)
    Fold Change: 50.2046
    Cell Significance Index: -61.9000
  • Cell Name: CD8-alpha-beta-positive, alpha-beta intraepithelial T cell (CL0000796)
    Fold Change: 17.0446
    Cell Significance Index: -45.6600
  • Cell Name: stromal cell of bone marrow (CL0010001)
    Fold Change: 16.9993
    Cell Significance Index: -67.0800
  • Cell Name: CD8-positive, alpha-beta regulatory T cell (CL0000795)
    Fold Change: 14.6087
    Cell Significance Index: -44.8700
  • Cell Name: epithelial cell of stomach (CL0002178)
    Fold Change: 7.6140
    Cell Significance Index: 887.3300
  • Cell Name: skeletal muscle myoblast (CL0000515)
    Fold Change: 2.3475
    Cell Significance Index: 25.5200
  • Cell Name: intermediate cell of urothelium (CL4030055)
    Fold Change: 2.2238
    Cell Significance Index: 400.8900
  • Cell Name: basal cell of prostate epithelium (CL0002341)
    Fold Change: 2.1463
    Cell Significance Index: 58.4200
  • Cell Name: basal cell of urothelium (CL1000486)
    Fold Change: 2.1327
    Cell Significance Index: 262.2400
  • Cell Name: acinar cell of salivary gland (CL0002623)
    Fold Change: 2.0427
    Cell Significance Index: 95.2400
  • Cell Name: granulosa cell (CL0000501)
    Fold Change: 1.9863
    Cell Significance Index: 52.2300
  • Cell Name: tonsil germinal center B cell (CL2000006)
    Fold Change: 1.9640
    Cell Significance Index: 231.6100
  • Cell Name: fibroblast of dermis (CL0002551)
    Fold Change: 1.9463
    Cell Significance Index: 40.7400
  • Cell Name: epithelial cell of small intestine (CL0002254)
    Fold Change: 1.8752
    Cell Significance Index: 304.9800
  • Cell Name: bladder urothelial cell (CL1001428)
    Fold Change: 1.8744
    Cell Significance Index: 97.3700
  • Cell Name: umbrella cell of urothelium (CL4030056)
    Fold Change: 1.8564
    Cell Significance Index: 17.1000
  • Cell Name: stromal cell of ovary (CL0002132)
    Fold Change: 1.8527
    Cell Significance Index: 254.4300
  • Cell Name: progenitor cell of mammary luminal epithelium (CL0009116)
    Fold Change: 1.8442
    Cell Significance Index: 137.4500
  • Cell Name: sebum secreting cell (CL0000317)
    Fold Change: 1.8363
    Cell Significance Index: 129.8700
  • Cell Name: cell in vitro (CL0001034)
    Fold Change: 1.8269
    Cell Significance Index: 997.7100
  • Cell Name: peg cell (CL4033014)
    Fold Change: 1.5807
    Cell Significance Index: 36.5200
  • Cell Name: hair follicular keratinocyte (CL2000092)
    Fold Change: 1.4698
    Cell Significance Index: 649.8200
  • Cell Name: early pro-B cell (CL0002046)
    Fold Change: 1.3238
    Cell Significance Index: 85.4100
  • Cell Name: lactocyte (CL0002325)
    Fold Change: 1.2861
    Cell Significance Index: 166.1500
  • Cell Name: mesonephric nephron tubule epithelial cell (CL1000022)
    Fold Change: 1.2662
    Cell Significance Index: 44.0000
  • Cell Name: endothelial cell of venule (CL1000414)
    Fold Change: 1.2297
    Cell Significance Index: 13.9700
  • Cell Name: luminal adaptive secretory precursor cell of mammary gland (CL4033057)
    Fold Change: 1.2247
    Cell Significance Index: 57.5600
  • Cell Name: odontoblast (CL0000060)
    Fold Change: 1.2160
    Cell Significance Index: 155.8800
  • Cell Name: colon goblet cell (CL0009039)
    Fold Change: 1.1062
    Cell Significance Index: 109.4300
  • Cell Name: glycinergic neuron (CL1001509)
    Fold Change: 0.8479
    Cell Significance Index: 44.5200
  • Cell Name: microfold cell of epithelium of small intestine (CL1000353)
    Fold Change: 0.7009
    Cell Significance Index: 48.4700
  • Cell Name: placental villous trophoblast (CL2000060)
    Fold Change: 0.5820
    Cell Significance Index: 15.5400
  • Cell Name: pancreatic acinar cell (CL0002064)
    Fold Change: 0.4171
    Cell Significance Index: 71.2300
  • Cell Name: eye photoreceptor cell (CL0000287)
    Fold Change: 0.4152
    Cell Significance Index: 26.1700
  • Cell Name: kidney cell (CL1000497)
    Fold Change: 0.4045
    Cell Significance Index: 3.2300
  • Cell Name: neoplastic cell (CL0001063)
    Fold Change: 0.3445
    Cell Significance Index: 68.3700
  • Cell Name: enteroendocrine cell of colon (CL0009042)
    Fold Change: 0.2501
    Cell Significance Index: 47.6000
  • Cell Name: L2/3-6 intratelencephalic projecting glutamatergic neuron (CL4023040)
    Fold Change: 0.2012
    Cell Significance Index: 40.3600
  • Cell Name: neutrophil progenitor cell (CL0000834)
    Fold Change: 0.1832
    Cell Significance Index: 4.9000
  • Cell Name: pulmonary alveolar epithelial cell (CL0000322)
    Fold Change: 0.1739
    Cell Significance Index: 131.6500
  • Cell Name: transit amplifying cell of colon (CL0009011)
    Fold Change: 0.1558
    Cell Significance Index: 4.9900
  • Cell Name: kidney loop of Henle cortical thick ascending limb epithelial cell (CL1001109)
    Fold Change: 0.0844
    Cell Significance Index: 61.8500
  • Cell Name: dopaminergic neuron (CL0000700)
    Fold Change: 0.0726
    Cell Significance Index: 20.8800
  • Cell Name: small intestine goblet cell (CL1000495)
    Fold Change: 0.0444
    Cell Significance Index: 1.5600
  • Cell Name: mesenchymal cell (CL0008019)
    Fold Change: 0.0367
    Cell Significance Index: 0.6200
  • Cell Name: obsolete caudal ganglionic eminence derived GABAergic cortical interneuron (CL4023070)
    Fold Change: 0.0137
    Cell Significance Index: 4.9000
  • Cell Name: pancreatic A cell (CL0000171)
    Fold Change: -0.0028
    Cell Significance Index: -2.0900
  • Cell Name: pigmented epithelial cell (CL0000529)
    Fold Change: -0.0230
    Cell Significance Index: -43.3000
  • Cell Name: CD14-positive, CD16-negative classical monocyte (CL0002057)
    Fold Change: -0.0265
    Cell Significance Index: -0.4900
  • Cell Name: pancreatic PP cell (CL0002275)
    Fold Change: -0.0318
    Cell Significance Index: -19.8400
  • Cell Name: abnormal cell (CL0001061)
    Fold Change: -0.0338
    Cell Significance Index: -3.4500
  • Cell Name: anterior lens cell (CL0002223)
    Fold Change: -0.0376
    Cell Significance Index: -69.3800
  • Cell Name: lens epithelial cell (CL0002224)
    Fold Change: -0.0454
    Cell Significance Index: -69.8800
  • Cell Name: secondary lens fiber (CL0002225)
    Fold Change: -0.0515
    Cell Significance Index: -70.0200
  • Cell Name: tuft cell of colon (CL0009041)
    Fold Change: -0.0718
    Cell Significance Index: -64.8200
  • Cell Name: type B pancreatic cell (CL0000169)
    Fold Change: -0.0751
    Cell Significance Index: -42.3400
  • Cell Name: non-pigmented ciliary epithelial cell (CL0002304)
    Fold Change: -0.0792
    Cell Significance Index: -50.3100
  • Cell Name: retinal rod cell (CL0000604)
    Fold Change: -0.1007
    Cell Significance Index: -1.2000
  • Cell Name: paneth cell of epithelium of small intestine (CL1000343)
    Fold Change: -0.1025
    Cell Significance Index: -2.2200
  • Cell Name: pancreatic D cell (CL0000173)
    Fold Change: -0.1104
    Cell Significance Index: -23.2600
  • Cell Name: pancreatic ductal cell (CL0002079)
    Fold Change: -0.1141
    Cell Significance Index: -13.0700
  • Cell Name: ciliary muscle cell (CL1000443)
    Fold Change: -0.1212
    Cell Significance Index: -55.0300
  • Cell Name: pro-T cell (CL0000827)
    Fold Change: -0.1992
    Cell Significance Index: -5.0900
  • Cell Name: basal epithelial cell of tracheobronchial tree (CL0002329)
    Fold Change: -0.2193
    Cell Significance Index: -6.1300
  • Cell Name: kidney loop of Henle descending limb epithelial cell (CL1001021)
    Fold Change: -0.2881
    Cell Significance Index: -22.8200
  • Cell Name: CD4-positive, alpha-beta memory T cell, CD45RO-positive (CL0001204)
    Fold Change: -0.3466
    Cell Significance Index: -10.1800
  • Cell Name: pigmented ciliary epithelial cell (CL0002303)
    Fold Change: -0.3495
    Cell Significance Index: -50.8000
  • Cell Name: forebrain neuroblast (CL1000042)
    Fold Change: -0.3643
    Cell Significance Index: -22.3900
  • Cell Name: paneth cell of colon (CL0009009)
    Fold Change: -0.4061
    Cell Significance Index: -6.0900
  • Cell Name: conjunctival epithelial cell (CL1000432)
    Fold Change: -0.4449
    Cell Significance Index: -6.0700
  • Cell Name: enteroendocrine cell of small intestine (CL0009006)
    Fold Change: -0.5201
    Cell Significance Index: -13.0000
  • Cell Name: pancreatic endocrine cell (CL0008024)
    Fold Change: -0.5275
    Cell Significance Index: -60.2100
  • Cell Name: smooth muscle cell of sphincter of pupil (CL0002243)
    Fold Change: -0.6385
    Cell Significance Index: -66.4800
  • Cell Name: fibroblast of mammary gland (CL0002555)
    Fold Change: -0.6410
    Cell Significance Index: -18.3800
  • Cell Name: vascular lymphangioblast (CL0005022)
    Fold Change: -0.6726
    Cell Significance Index: -11.8900
  • Cell Name: retinal progenitor cell (CL0002672)
    Fold Change: -0.7002
    Cell Significance Index: -39.2900
  • Cell Name: luminal hormone-sensing cell of mammary gland (CL4033058)
    Fold Change: -0.7125
    Cell Significance Index: -4.3900
  • Cell Name: enterocyte of epithelium of large intestine (CL0002071)
    Fold Change: -0.7377
    Cell Significance Index: -33.4400
  • Cell Name: cardiac muscle myoblast (CL0000513)
    Fold Change: -0.7725
    Cell Significance Index: -59.2800
  • Cell Name: hippocampal granule cell (CL0001033)
    Fold Change: -0.7907
    Cell Significance Index: -53.1700
  • Cell Name: enterocyte of epithelium of small intestine (CL1000334)
    Fold Change: -0.7917
    Cell Significance Index: -22.8100
  • Cell Name: mesodermal cell (CL0000222)
    Fold Change: -0.8131
    Cell Significance Index: -5.0900
  • Cell Name: intestinal tuft cell (CL0019032)
    Fold Change: -0.9077
    Cell Significance Index: -55.6500
  • Cell Name: endothelial cell of placenta (CL0009092)
    Fold Change: -0.9567
    Cell Significance Index: -5.7800
  • Cell Name: extravillous trophoblast (CL0008036)
    Fold Change: -0.9576
    Cell Significance Index: -5.9500
  • Cell Name: intestinal epithelial cell (CL0002563)
    Fold Change: -0.9665
    Cell Significance Index: -10.0100
  • Cell Name: interstitial cell of ovary (CL0002094)
    Fold Change: -0.9956
    Cell Significance Index: -12.7500
  • Cell Name: cerebellar granule cell (CL0001031)
    Fold Change: -1.0620
    Cell Significance Index: -18.2000
  • Cell Name: lung endothelial cell (CL1001567)
    Fold Change: -1.0835
    Cell Significance Index: -56.4400
  • Cell Name: kidney epithelial cell (CL0002518)
    Fold Change: -1.1003
    Cell Significance Index: -32.4100
  • Cell Name: microcirculation associated smooth muscle cell (CL0008035)
    Fold Change: -1.2012
    Cell Significance Index: -10.0900
  • Cell Name: cortical cell of adrenal gland (CL0002097)
    Fold Change: -1.2967
    Cell Significance Index: -34.7500
  • Cell Name: stratified epithelial cell (CL0000079)
    Fold Change: -1.3694
    Cell Significance Index: -50.2700
  • Cell Name: indirect pathway medium spiny neuron (CL4023029)
    Fold Change: -1.4038
    Cell Significance Index: -62.1000

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this specific cell.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Other Information

**Key Characteristics:** 1. **Spliceosome Complex:** LSM3 is a key component of the spliceosome complex, which is responsible for RNA processing and degradation. 2. **U6 snRNA Association:** LSM3 associates with U6 snRNA to facilitate the recognition and degradation of mRNA. 3. **Deadenylation-Dependent mRNA Decay:** LSM3 is involved in deadenylation-dependent mRNA decay, a process that regulates mRNA stability and translation. 4. **Metabolic Regulation:** LSM3 is also involved in regulating metabolic pathways, including RNA metabolism and gene expression. **Pathways and Functions:** 1. **Catalytic Step 2 Spliceosome:** LSM3 participates in the catalytic step 2 of the spliceosome complex, which removes introns from pre-mRNA. 2. **Deadenylation-Dependent mRNA Decay:** LSM3 is involved in deadenylation-dependent mRNA decay, a process that regulates mRNA stability and translation. 3. **Lsm1-7-Pat1 Complex:** LSM3 forms a complex with Lsm1-7 and Pat1 to regulate mRNA processing and degradation. 4. **U2-Type Precatalytic Spliceosome:** LSM3 is involved in the U2-type precatalytic spliceosome complex, which recognizes and processes pre-mRNA. 5. **P-body Assembly:** LSM3 is also involved in the assembly of P-bodies, which are cytoplasmic structures responsible for mRNA decay and translation regulation. **Clinical Significance:** 1. **Diseases Associated with LSM3:** Abnormalities in LSM3 expression have been implicated in several diseases, including cancer, neurodegenerative disorders, and metabolic disorders. 2. **Therapeutic Targeting:** LSM3 has emerged as a potential therapeutic target for the treatment of diseases associated with aberrant RNA processing and degradation. 3. **Regulation of Gene Expression:** LSM3 plays a crucial role in regulating gene expression, and dysregulation of LSM3 expression can lead to changes in gene expression patterns. 4. **Cellular Homeostasis:** LSM3 is essential for maintaining cellular homeostasis, and abnormalities in LSM3 expression can lead to changes in cellular behavior and function. In conclusion, LSM3 is a crucial component of the spliceosome complex, and its dysregulation has been implicated in several diseases. Further research is needed to fully understand the role of LSM3 in RNA processing and degradation and to explore its potential as a therapeutic target.

Genular Protein ID: 847001327

Symbol: LSM3_HUMAN

Name: U6 snRNA-associated Sm-like protein LSm3

UniProtKB Accession Codes:

P62310 Q6IAH0 Q9Y4Z1

Database IDs:

AGR 1 AlphaFoldDB 1 Antibodypedia 1 Bgee 1 BioGRID 1 BioGRID-ORCS 1 BioMuta 1 CCDS 1 CDD 1 CORUM 1 CTD 1 ChiTaRS 1 ComplexPortal 1 DIP 1 DMDM 1 DNASU 1 DisGeNET 1 EMBL 6 EMDB 18 Ensembl 1 GO 16 Gene3D 1 GeneCards 1 GeneTree 1 GeneWiki 1 GenomeRNAi 1 GlyGen 1 HGNC 1 HOGENOM 1 HPA 1 InParanoid 1 IntAct 1 InterPro 5 KEGG 1 MANE-Select 1 MIM 1 MINT 1 MassIVE 1 MoonDB 1 NCBI Taxonomy 1 OMA 1 OpenTargets 1 OrthoDB 1 PANTHER 2 PDB 19 PDBsum 19 PRO 1 PROSITE 1 PathwayCommons 1 PaxDb 1 PeptideAtlas 1 Pfam 1 PharmGKB 1 Pharos 1 PhosphoSitePlus 1 PhylomeDB 1 Proteomes 1 ProteomicsDB 1 Pumba 1 RNAct 1 Reactome 2 RefSeq 1 SIGNOR 1 SMART 1 SMR 1 STRING 1 SUPFAM 1 SignaLink 1 TopDownProteomics 1 TreeFam 1 UCSC 1 VEuPathDB 1 eggNOG 1 iPTMnet 1 jPOST 1 neXtProt 1

Citations:

PubMed ID: 10369684

Title: Sm and Sm-like proteins assemble in two related complexes of deep evolutionary origin.

PubMed ID: 10369684

DOI: 10.1093/emboj/18.12.3451

PubMed ID: 10523320

Title: A doughnut-shaped heteromer of human Sm-like proteins binds to the 3'-end of U6 snRNA, thereby facilitating U4/U6 duplex formation in vitro.

PubMed ID: 10523320

DOI: 10.1093/emboj/18.20.5789

PubMed ID: 15489334

Title: The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).

PubMed ID: 15489334

DOI: 10.1101/gr.2596504

PubMed ID: 11991638

Title: Purification and characterization of native spliceosomes suitable for three-dimensional structural analysis.

PubMed ID: 11991638

DOI: 10.1017/s1355838202021088

PubMed ID: 19413330

Title: Lys-N and trypsin cover complementary parts of the phosphoproteome in a refined SCX-based approach.

PubMed ID: 19413330

DOI: 10.1021/ac9004309

PubMed ID: 21269460

Title: Initial characterization of the human central proteome.

PubMed ID: 21269460

DOI: 10.1186/1752-0509-5-17

PubMed ID: 22814378

Title: N-terminal acetylome analyses and functional insights of the N-terminal acetyltransferase NatB.

PubMed ID: 22814378

DOI: 10.1073/pnas.1210303109

PubMed ID: 25944712

Title: N-terminome analysis of the human mitochondrial proteome.

PubMed ID: 25944712

DOI: 10.1002/pmic.201400617

PubMed ID: 26912367

Title: Molecular architecture of the human U4/U6.U5 tri-snRNP.

PubMed ID: 26912367

DOI: 10.1126/science.aad2085

PubMed ID: 28781166

Title: Cryo-EM Structure of a Pre-catalytic Human Spliceosome Primed for Activation.

PubMed ID: 28781166

DOI: 10.1016/j.cell.2017.07.011

Sequence Information:

  • Length: 102
  • Mass: 11845
  • Checksum: 206B0DF0D95CD4D2
  • Sequence:
    • MADDVDQQQT TNTVEEPLDL IRLSLDERIY VKMRNDRELR GRLHAYDQHL NMILGDVEET 
VTTIEIDEET YEEIYKSTKR NIPMLFVRGD GVVLVAPPLR VG

Database document:

This is a preview of the gene's schema. Only a few entries are kept for 'singleCellExpressions,' 'mRNAExpressions,' and other large data arrays for visualization purposes. You can zoom in with the mouse wheel for a closer view, and the text will adjust automatically if necessary. For the full schema, download it here.