Genular: Defining Cellular Identity and Function

Details for: LSM6

Gene ID: 11157

Symbol: LSM6

Ensembl ID: ENSG00000164167

Description: LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated

Associated with

Deadenylation-dependent mrna decay
(R-HSA-429914)
Metabolism of rna
(R-HSA-8953854)
Mrna decay by 5' to 3' exoribonuclease
(R-HSA-430039)
Mrna splicing
(R-HSA-72172)
Mrna splicing - major pathway
(R-HSA-72163)
Processing of capped intron-containing pre-mrna
(R-HSA-72203)
Cytoplasm
(GO:0005737)
Cytosol
(GO:0005829)
Lsm2-8 complex
(GO:0120115)
Maturation of ssu-rrna
(GO:0030490)
Mrna catabolic process
(GO:0006402)
Mrna splicing, via spliceosome
(GO:0000398)
Nucleolus
(GO:0005730)
Nucleoplasm
(GO:0005654)
Nucleus
(GO:0005634)
P-body
(GO:0000932)
Protein binding
(GO:0005515)
Protein heterodimerization activity
(GO:0046982)
Rna binding
(GO:0003723)
Rna splicing
(GO:0008380)
Small nuclear ribonucleoprotein complex
(GO:0030532)
Sno(s)rna-containing ribonucleoprotein complex
(GO:0005732)
Trna processing
(GO:0008033)
U2-type precatalytic spliceosome
(GO:0071005)
U4/u6 x u5 tri-snrnp complex
(GO:0046540)
U6 snrnp
(GO:0005688)

Cells (max top 100)

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

Cell Name: pancreatic acinar cell (CL0002064)
Fold Change: 2.32
Marker Score: 4,896
Cell Name: erythroid progenitor cell (CL0000038)
Fold Change: 2.25
Marker Score: 2,346
Cell Name: tonsil germinal center B cell (CL2000006)
Fold Change: 2.11
Marker Score: 6,260
Cell Name: oogonial cell (CL0000024)
Fold Change: 2.11
Marker Score: 3,032
Cell Name: alveolar macrophage (CL0000583)
Fold Change: 2.09
Marker Score: 53,586
Cell Name: CD14-positive monocyte (CL0001054)
Fold Change: 2.06
Marker Score: 5,125
Cell Name: B-1 B cell (CL0000819)
Fold Change: 2.02
Marker Score: 3,525
Cell Name: mesodermal cell (CL0000222)
Fold Change: 1.96
Marker Score: 25,824
Cell Name: germinal center B cell (CL0000844)
Fold Change: 1.86
Marker Score: 1,131
Cell Name: cortical thymic epithelial cell (CL0002364)
Fold Change: 1.85
Marker Score: 6,856
Cell Name: pro-T cell (CL0000827)
Fold Change: 1.84
Marker Score: 7,513
Cell Name: fraction A pre-pro B cell (CL0002045)
Fold Change: 1.79
Marker Score: 1,806
Cell Name: epithelial cell of nephron (CL1000449)
Fold Change: 1.78
Marker Score: 3,723
Cell Name: placental villous trophoblast (CL2000060)
Fold Change: 1.78
Marker Score: 6,976
Cell Name: blood cell (CL0000081)
Fold Change: 1.76
Marker Score: 20,429
Cell Name: migratory enteric neural crest cell (CL0002607)
Fold Change: 1.76
Marker Score: 1,652
Cell Name: kidney epithelial cell (CL0002518)
Fold Change: 1.7
Marker Score: 1,803
Cell Name: CD4-positive, alpha-beta memory T cell, CD45RO-positive (CL0001204)
Fold Change: 1.7
Marker Score: 10,884
Cell Name: neural crest cell (CL0011012)
Fold Change: 1.67
Marker Score: 1,789
Cell Name: centroblast (CL0009112)
Fold Change: 1.67
Marker Score: 822
Cell Name: mesenchymal cell (CL0008019)
Fold Change: 1.64
Marker Score: 2,786
Cell Name: male germ cell (CL0000015)
Fold Change: 1.63
Marker Score: 471
Cell Name: radial glial cell (CL0000681)
Fold Change: 1.63
Marker Score: 602
Cell Name: CD8-alpha-alpha-positive, alpha-beta intraepithelial T cell (CL0000915)
Fold Change: 1.61
Marker Score: 2,277
Cell Name: proerythroblast (CL0000547)
Fold Change: 1.61
Marker Score: 1,091
Cell Name: CD14-positive, CD16-positive monocyte (CL0002397)
Fold Change: 1.6
Marker Score: 3,117
Cell Name: mature T cell (CL0002419)
Fold Change: 1.6
Marker Score: 15,813
Cell Name: CD14-positive, CD16-negative classical monocyte (CL0002057)
Fold Change: 1.58
Marker Score: 88,611
Cell Name: Leydig cell (CL0000178)
Fold Change: 1.57
Marker Score: 1,695
Cell Name: large pre-B-II cell (CL0000957)
Fold Change: 1.57
Marker Score: 4,265
Cell Name: enteric neuron (CL0007011)
Fold Change: 1.56
Marker Score: 832
Cell Name: cell in vitro (CL0001034)
Fold Change: 1.56
Marker Score: 54,040
Cell Name: stem cell (CL0000034)
Fold Change: 1.56
Marker Score: 3,705
Cell Name: kidney cell (CL1000497)
Fold Change: 1.55
Marker Score: 1,034
Cell Name: interstitial cell of ovary (CL0002094)
Fold Change: 1.54
Marker Score: 10,027
Cell Name: malignant cell (CL0001064)
Fold Change: 1.54
Marker Score: 20,664
Cell Name: bladder urothelial cell (CL1001428)
Fold Change: 1.53
Marker Score: 2,247
Cell Name: primordial germ cell (CL0000670)
Fold Change: 1.52
Marker Score: 1,906
Cell Name: kidney collecting duct principal cell (CL1001431)
Fold Change: 1.51
Marker Score: 3,808
Cell Name: neuroblast (sensu Vertebrata) (CL0000031)
Fold Change: 1.51
Marker Score: 946
Cell Name: early lymphoid progenitor (CL0000936)
Fold Change: 1.5
Marker Score: 737
Cell Name: non-classical monocyte (CL0000875)
Fold Change: 1.5
Marker Score: 3,625
Cell Name: basal cell of prostate epithelium (CL0002341)
Fold Change: 1.48
Marker Score: 3,619
Cell Name: enteric smooth muscle cell (CL0002504)
Fold Change: 1.48
Marker Score: 3,484
Cell Name: Unknown (CL0000548)
Fold Change: 1.48
Marker Score: 1,078
Cell Name: medullary thymic epithelial cell (CL0002365)
Fold Change: 1.47
Marker Score: 2,418
Cell Name: Unknown (CL0002371)
Fold Change: 1.47
Marker Score: 1,557
Cell Name: Hofbauer cell (CL3000001)
Fold Change: 1.45
Marker Score: 797
Cell Name: promyelocyte (CL0000836)
Fold Change: 1.44
Marker Score: 713
Cell Name: mesenchymal stem cell (CL0000134)
Fold Change: 1.44
Marker Score: 2,215
Cell Name: kidney collecting duct intercalated cell (CL1001432)
Fold Change: 1.42
Marker Score: 2,360
Cell Name: memory B cell (CL0000787)
Fold Change: 1.42
Marker Score: 1,077
Cell Name: decidual cell (CL2000002)
Fold Change: 1.42
Marker Score: 6,129
Cell Name: primitive red blood cell (CL0002355)
Fold Change: 1.41
Marker Score: 1,058
Cell Name: epithelial cell of urethra (CL1000296)
Fold Change: 1.4
Marker Score: 1,104
Cell Name: plasmablast (CL0000980)
Fold Change: 1.4
Marker Score: 1,863
Cell Name: type I NK T cell (CL0000921)
Fold Change: 1.39
Marker Score: 1,089
Cell Name: type EC enteroendocrine cell (CL0000577)
Fold Change: 1.38
Marker Score: 1,304
Cell Name: oocyte (CL0000023)
Fold Change: 1.38
Marker Score: 342
Cell Name: ovarian surface epithelial cell (CL2000064)
Fold Change: 1.36
Marker Score: 3,707
Cell Name: peripheral nervous system neuron (CL2000032)
Fold Change: 1.35
Marker Score: 1,521
Cell Name: centrocyte (CL0009111)
Fold Change: 1.35
Marker Score: 321
Cell Name: pneumocyte (CL0000322)
Fold Change: 1.35
Marker Score: 2,165
Cell Name: respiratory epithelial cell (CL0002368)
Fold Change: 1.34
Marker Score: 740
Cell Name: pancreatic stellate cell (CL0002410)
Fold Change: 1.32
Marker Score: 836
Cell Name: conventional dendritic cell (CL0000990)
Fold Change: 1.32
Marker Score: 912
Cell Name: nephron tubule epithelial cell (CL1000494)
Fold Change: 1.31
Marker Score: 308
Cell Name: lung ciliated cell (CL1000271)
Fold Change: 1.31
Marker Score: 622
Cell Name: DN3 thymocyte (CL0000807)
Fold Change: 1.31
Marker Score: 654
Cell Name: kidney connecting tubule epithelial cell (CL1000768)
Fold Change: 1.31
Marker Score: 1,851
Cell Name: hematopoietic multipotent progenitor cell (CL0000837)
Fold Change: 1.31
Marker Score: 638
Cell Name: extravillous trophoblast (CL0008036)
Fold Change: 1.3
Marker Score: 1,160
Cell Name: naive thymus-derived CD8-positive, alpha-beta T cell (CL0000900)
Fold Change: 1.3
Marker Score: 2,322
Cell Name: stromal cell of lamina propria of small intestine (CL0009022)
Fold Change: 1.29
Marker Score: 291
Cell Name: capillary endothelial cell (CL0002144)
Fold Change: 1.29
Marker Score: 1,386
Cell Name: basal cell of epithelium of trachea (CL1000348)
Fold Change: 1.28
Marker Score: 9,560
Cell Name: microfold cell of epithelium of small intestine (CL1000353)
Fold Change: 1.28
Marker Score: 306
Cell Name: myelocyte (CL0002193)
Fold Change: 1.27
Marker Score: 550
Cell Name: Bergmann glial cell (CL0000644)
Fold Change: 1.27
Marker Score: 518
Cell Name: intestinal crypt stem cell (CL0002250)
Fold Change: 1.27
Marker Score: 477
Cell Name: hematopoietic precursor cell (CL0008001)
Fold Change: 1.26
Marker Score: 442
Cell Name: epithelial cell (CL0000066)
Fold Change: 1.25
Marker Score: 1,995
Cell Name: endothelial cell of uterus (CL0009095)
Fold Change: 1.25
Marker Score: 2,505
Cell Name: naive B cell (CL0000788)
Fold Change: 1.24
Marker Score: 1,107
Cell Name: double-positive, alpha-beta thymocyte (CL0000809)
Fold Change: 1.24
Marker Score: 2,425
Cell Name: small pre-B-II cell (CL0000954)
Fold Change: 1.23
Marker Score: 1,481
Cell Name: neural cell (CL0002319)
Fold Change: 1.23
Marker Score: 593
Cell Name: kidney loop of Henle thin ascending limb epithelial cell (CL1001107)
Fold Change: 1.22
Marker Score: 1,238
Cell Name: pancreatic D cell (CL0000173)
Fold Change: 1.22
Marker Score: 530
Cell Name: mucous neck cell (CL0000651)
Fold Change: 1.22
Marker Score: 2,765
Cell Name: prostate gland microvascular endothelial cell (CL2000059)
Fold Change: 1.21
Marker Score: 472
Cell Name: elicited macrophage (CL0000861)
Fold Change: 1.2
Marker Score: 7,316
Cell Name: ciliated columnar cell of tracheobronchial tree (CL0002145)
Fold Change: 1.2
Marker Score: 10,441
Cell Name: lung macrophage (CL1001603)
Fold Change: 1.2
Marker Score: 1,370
Cell Name: interstitial cell of Cajal (CL0002088)
Fold Change: 1.2
Marker Score: 414
Cell Name: decidual natural killer cell, human (CL0002343)
Fold Change: 1.19
Marker Score: 3,300
Cell Name: endothelial cell (CL0000115)
Fold Change: 1.19
Marker Score: 1,067
Cell Name: CD4-positive helper T cell (CL0000492)
Fold Change: 1.17
Marker Score: 1,278
Cell Name: fibroblast of mammary gland (CL0002555)
Fold Change: 1.17
Marker Score: 39,974
Cell Name: enterocyte (CL0000584)
Fold Change: 1.17
Marker Score: 5,636

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 Marker Score to the Marker Score Threshold, indicating how much the gene expression has changed compared to a baseline.
Marker Score: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

**Key Characteristics** LSM6 exhibits several key characteristics that underscore its significance in RNA regulation: 1. **Association with U6 snRNA**: LSM6 is specifically associated with U6 snRNA, a small nuclear RNA that plays a critical role in the maturation of snRNAs. 2. **Involvement in mRNA decay**: LSM6 has been shown to be involved in the regulation of mRNA decay, specifically through its association with the Lsm2-8 complex. 3. **Role in splicing**: LSM6 has also been implicated in the regulation of splicing, particularly through its involvement in the formation of the U4/U6/U5 tri-snRNP complex. 4. **Expression in various cell types**: LSM6 is expressed in a range of cell types, including pancreatic acinar cells, erythroid progenitor cells, and germinal center B cells. **Pathways and Functions** LSM6 is involved in several key pathways, including: 1. **Deadenylation-dependent mRNA decay**: LSM6 is involved in the regulation of mRNA decay through its association with the Lsm2-8 complex. 2. **Maturation of ssu-rRNA**: LSM6 plays a critical role in the maturation of small subunit ribosomal RNA (ssu-rRNA). 3. **Metabolism of RNA**: LSM6 is involved in the regulation of RNA metabolism, including splicing and decay. 4. **RNA splicing**: LSM6 is implicated in the regulation of RNA splicing, particularly through its involvement in the formation of the U4/U6/U5 tri-snRNP complex. **Clinical Significance** The dysregulation of LSM6 has been implicated in various diseases, including: 1. **Cancer**: LSM6 has been shown to be overexpressed in certain types of cancer, including pancreatic cancer. 2. **Autoimmune diseases**: LSM6 has been implicated in the regulation of immune responses, and its dysregulation may contribute to autoimmune diseases, such as rheumatoid arthritis. 3. **Neurodegenerative diseases**: LSM6 has been implicated in the regulation of RNA metabolism, and its dysregulation may contribute to neurodegenerative diseases, such as Alzheimer's disease. In conclusion, LSM6 is a critical component of the Lsm2-8 complex, which plays a pivotal role in the regulation of RNA decay and splicing. Its dysregulation has been implicated in various diseases, highlighting the importance of LSM6 in maintaining cellular homeostasis. Further research is needed to fully elucidate the role of LSM6 in human disease and to explore its potential as a therapeutic target.

Disclaimer: This summary is generated by an AI language model and may contain inaccuracies or hallucinations. However, it is cross-referenced with curated gene expression data from major biological sources. Please verify the information before use.

U6 snRNA-associated Sm-like protein LSm6

Genular Protein ID: 2381384963

Symbol: LSM6_HUMAN

Name: U6 snRNA-associated Sm-like protein LSm6

UniProtKB Accession Codes:

P62312 Q4W5J5 Q9Y4Y8

Database IDs:

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: 14702039

Title: Complete sequencing and characterization of 21,243 full-length human cDNAs.

PubMed ID: 14702039

DOI: 10.1038/ng1285

PubMed ID: 15815621

Title: Generation and annotation of the DNA sequences of human chromosomes 2 and 4.

PubMed ID: 15815621

DOI: 10.1038/nature03466

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: 12515382

Title: The human LSm1-7 proteins colocalize with the mRNA-degrading enzymes Dcp1/2 and Xrnl in distinct cytoplasmic foci.

PubMed ID: 12515382

PubMed ID: 19608861

Title: Lysine acetylation targets protein complexes and co-regulates major cellular functions.

PubMed ID: 19608861

DOI: 10.1126/science.1175371

PubMed ID: 21269460

Title: Initial characterization of the human central proteome.

PubMed ID: 21269460

DOI: 10.1186/1752-0509-5-17

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: 80
Mass: 9128
Checksum: 21167891FDE804F1
Sequence:

MSLRKQTPSD FLKQIIGRPV VVKLNSGVDY RGVLACLDGY MNIALEQTEE YVNGQLKNKY 
GDAFIRGNNV LYISTQKRRM

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.

Details for: LSM6

Associated with

Cells (max top 100)

Other Information

Sm and Sm-like proteins assemble in two related complexes of deep evolutionary origin. PubMed ID: 10369684

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

Complete sequencing and characterization of 21,243 full-length human cDNAs. PubMed ID: 14702039

Generation and annotation of the DNA sequences of human chromosomes 2 and 4. PubMed ID: 15815621

The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). PubMed ID: 15489334

The human LSm1-7 proteins colocalize with the mRNA-degrading enzymes Dcp1/2 and Xrnl in distinct cytoplasmic foci. PubMed ID: 12515382

Lysine acetylation targets protein complexes and co-regulates major cellular functions. PubMed ID: 19608861

Initial characterization of the human central proteome. PubMed ID: 21269460

Molecular architecture of the human U4/U6.U5 tri-snRNP. PubMed ID: 26912367

Cryo-EM Structure of a Pre-catalytic Human Spliceosome Primed for Activation. PubMed ID: 28781166