Gene name: LSM4
Reference locus (S288C): YER112W
Gene biotype: protein_coding
Description: U6 snRNA-associated Sm-like protein LSm4; Lsm (Like Sm) protein; part of heteroheptameric complexes (Lsm2p-7p and either Lsm1p or 8p): cytoplasmic Lsm1p complex involved in mRNA decay; nuclear Lsm8p complex part of U6 snRNP and possibly involved in processing tRNA, snoRNA, and rRNA; forms cytoplasmic foci upon DNA replication stress
Top 10 interactors (score): SMD3 (0.999); LSM3 (0.999); PRP3 (0.999); SMX3 (0.999); EDC3 (0.999); SMD1 (0.999); DHH1 (0.999); LSM6 (0.999); BRR2 (0.999); LSM5 (0.999); LSM1 (0.999); PRP4 (0.999); LSM7 (0.999); PRP6 (0.999); PAT1 (0.999); SME1 (0.999); SNU66 (0.999); SMD2 (0.999); PRP24 (0.999); SMB1 (0.999)
Homologues (species, bitscore): LSM4 (Homo sapiens, 73.2); Lsm4 (Mus musculus, 71.6); lsm4 (Danio rerio, 74.7); lsm4 (Xenopus tropicalis, 76.3); CG17768 (Drosophila melanogaster, 72.8); lsm-4 (Caenorhabditis elegans, 68.6); emb1644 (Arabidopsis thaliana, 73.9)
External links:
Saccharomyces genome database (SGD)
STRING database
BioGRID
UniProt Knowledgebase
Kyoto encyclopedia of genes and genomes (KEGG)
Reactome
UCSC Genome Browser
| strain | assembly | application | macro_region | gene_coord | geneID | rnaID | protID | %id | %cov_exon | status | copyNumber | copyID | nORFs | match_ref_CDS | validORF | missing_startCodon | missing_stopCodon | outOfFrame_stopCodon |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| AKU4011 | GCA_001738255.1 | Sake | Asia | CM005299.1:381108-381671:+ | gene-YER112W_AKU4011 | rna-NM_001179002.3_AKU4011 | cds-NP_011037.3_AKU4011 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| BG1 | GCA_001932575.1 | Bioethanol | South America | MSHP01000011.1:43946-44509:- | gene-YER112W_BG1 | rna-NM_001179002.3_BG1 | cds-NP_011037.3_BG1 | 99.4 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| Bruggeman | GCA_001738585.1 | Bread | Not Applicable | CM005507.1:391583-392146:+ | gene-YER112W_Bruggeman | rna-NM_001179002.3_Bruggeman | cds-NP_011037.3_Bruggeman | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CAT1 | GCA_001738705.1 | Bioethanol | South America | CM005523.1:386131-386694:+ | gene-YER112W_CAT1 | rna-NM_001179002.3_CAT1 | cds-NP_011037.3_CAT1 | 99.6 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CBS1585 | GCA_001738375.1 | Sake | Asia | CM005363.1:380503-381066:+ | gene-YER112W_CBS1585 | rna-NM_001179002.3_CBS1585 | cds-NP_011037.3_CBS1585 | 99.4 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CBS436 | GCA_001738355.1 | Sake | Asia | CM005347.1:383213-383776:+ | gene-YER112W_CBS436 | rna-NM_001179002.3_CBS436 | cds-NP_011037.3_CBS436 | 99.8 | 100.0 | Mismatch | 1 | 1 | 1 | False | True | False | False | False |
| CBS6412 | GCA_001738345.1 | Sake | Asia | CM005331.1:379583-380146:+ | gene-YER112W_CBS6412 | rna-NM_001179002.3_CBS6412 | cds-NP_011037.3_CBS6412 | 99.8 | 100.0 | Mismatch | 1 | 1 | 1 | False | True | False | False | False |
| CBS6413 | GCA_001738265.1 | Sake | Asia | CM005315.1:386425-386988:+ | gene-YER112W_CBS6413 | rna-NM_001179002.3_CBS6413 | cds-NP_011037.3_CBS6413 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CENPK1137D | GCA_000269885.1 | Laboratory | Not Applicable | CM001526.1:384975-385538:+ | gene-YER112W_CENPK1137D | rna-NM_001179002.3_CENPK1137D | cds-NP_011037.3_CENPK1137D | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| EthanolRed | GCA_001738615.1 | Bioethanol | Asia | CM005475.1:380957-381520:+ | gene-YER112W_EthanolRed | rna-NM_001179002.3_EthanolRed | cds-NP_011037.3_EthanolRed | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| FaliES1 | GCA_001738715.1 | Bioethanol | Asia | CM005539.1:381438-382001:+ | gene-YER112W_FaliES1 | rna-NM_001179002.3_FaliES1 | cds-NP_011037.3_FaliES1 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| JAY291 | GCA_000182315.2 | Bioethanol | South America | ACFL01000174.1:9540-10103:- | gene-YER112W_JAY291 | rna-NM_001179002.3_JAY291 | cds-NP_011037.3_JAY291 | 99.4 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL30387 | GCA_001738515.1 | Bread | Europe | CM005411.1:388532-389095:+ | gene-YER112W_MUCL30387 | rna-NM_001179002.3_MUCL30387 | cds-NP_011037.3_MUCL30387 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL30388 | GCA_001738495.1 | Bread | Europe | CM005443.1:383477-384040:+ | gene-YER112W_MUCL30388 | rna-NM_001179002.3_MUCL30388 | cds-NP_011037.3_MUCL30388 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL39482 | GCA_001738235.1 | Sake | Asia | CM005283.1:379528-380091:+ | gene-YER112W_MUCL39482 | rna-NM_001179002.3_MUCL39482 | cds-NP_011037.3_MUCL39482 | 99.4 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL42920 | GCA_001738485.1 | Bread | Europe | CM005427.1:388024-388587:+ | gene-YER112W_MUCL42920 | rna-NM_001179002.3_MUCL42920 | cds-NP_011037.3_MUCL42920 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| NCIM3186 | GCA_001029075.1 | Bioethanol | Asia | CP011814.1:387231-387794:+ | gene-YER112W_NCIM3186 | rna-NM_001179002.3_NCIM3186 | cds-NP_011037.3_NCIM3186 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| NCYC1407 | GCA_001738225.1 | Sake | Asia | CM005267.1:385061-385624:+ | gene-YER112W_NCYC1407 | rna-NM_001179002.3_NCYC1407 | cds-NP_011037.3_NCYC1407 | 99.6 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| PE2H3 | GCA_905220325.1 | Bioethanol | South America | HG994144.1:395609-396172:+ | gene-YER112W_PE2H3 | rna-NM_001179002.3_PE2H3 | cds-NP_011037.3_PE2H3 | 99.4 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| PE2H4 | GCA_905220315.1 | Bioethanol | South America | LR999876.1:385550-386113:+ | gene-YER112W_PE2H4 | rna-NM_001179002.3_PE2H4 | cds-NP_011037.3_PE2H4 | 99.4 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| S288C | GCF_000146045.2 | Laboratory | Not applicable | NC_001137.3:387232-387795:+ | gene-YER112W_S288C | rna-NM_001179002.3_S288C | cds-NP_011037.3_S288C | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| SA1 | GCA_004114265.1 | Bioethanol | South America | SDIA01000023.1:96841-97404:+ | gene-YER112W_SA1 | rna-NM_001179002.3_SA1 | cds-NP_011037.3_SA1 | 99.4 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| ThermosaccDry | GCA_001738605.1 | Bioethanol | Asia | CM005491.1:382236-382799:+ | gene-YER112W_ThermosaccDry | rna-NM_001179002.3_ThermosaccDry | cds-NP_011037.3_ThermosaccDry | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| VR1 | GCA_001738595.1 | Bioethanol | South America | CM005459.1:383295-383858:+ | gene-YER112W_VR1 | rna-NM_001179002.3_VR1 | cds-NP_011037.3_VR1 | 99.6 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| ZTW1 | GCA_000308935.1 | Bioethanol | Asia | AMDD01000009.1:379352-379915:+ | gene-YER112W_ZTW1 | rna-NM_001179002.3_ZTW1 | cds-NP_011037.3_ZTW1 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| Sparadoxus | GCF_002079055.1 | Not applicable | Not applicable | NC_047491.1:383309-383851:+ | gene-YER112W_Sparadoxus | rna-NM_001179002.3_Sparadoxus | cds-NP_011037.3_Sparadoxus | 88.0 | 95.7 | Verified | 1 | 1 | 1 | False | True | False | False | False |