Gene name: YSH1
Reference locus (S288C): YLR277C
Gene biotype: protein_coding
Description: Endoribonuclease; subunit of the mRNA cleavage and polyadenylation specificity complex; required for 3' processing, splicing, and transcriptional termination of mRNAs and snoRNAs; protein abundance increases in response to DNA replication stress; YSH1 has a paralog, SYC1, that arose from the whole genome duplication; Belongs to the metallo-beta-lactamase superfamily. RNA-metabolizing metallo-beta-lactamase-like family. CPSF2/YSH1 subfamily
Top 10 interactors (score): CFT2 (0.999); RNA15 (0.999); MPE1 (0.999); TFC4 (0.999); REF2 (0.999); PTA1 (0.999); PAP1 (0.999); PTI1 (0.999); SWD2 (0.999); RNA14 (0.999); FIP1 (0.999); CFT1 (0.999); PFS2 (0.999); SSU72 (0.999); YTH1 (0.999); PCF11 (0.997); GLC7 (0.997); CLP1 (0.995); SYC1 (0.934); HRP1 (0.931)
Homologues (species, bitscore): CPSF3 (Homo sapiens, 553.1); Cpsf3 (Mus musculus, 555.4); cpsf3 (Danio rerio, 557.8); cpsf3 (Xenopus tropicalis, 554.3); Cpsf73 (Drosophila melanogaster, 539.3); cpsf-3 (Caenorhabditis elegans, 537.3); CPSF73-I (Arabidopsis thaliana, 539.3)
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 | CM005306.1:646030-648369:- | gene-YLR277C_AKU4011 | rna-NM_001182164.1_AKU4011 | cds-NP_013379.1_AKU4011 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| BG1 | GCA_001932575.1 | Bioethanol | South America | MSHP01000170.1:84382-86667:+ | gene-YLR277C_BG1 | rna-NM_001182164.1_BG1 | cds-NP_013379.1_BG1 | 97.3 | 97.6 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| Bruggeman | GCA_001738585.1 | Bread | Not Applicable | CM005514.1:680961-683300:- | gene-YLR277C_Bruggeman | rna-NM_001182164.1_Bruggeman | cds-NP_013379.1_Bruggeman | 99.7 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| CAT1 | GCA_001738705.1 | Bioethanol | South America | CM005530.1:679780-682119:- | gene-YLR277C_CAT1 | rna-NM_001182164.1_CAT1 | cds-NP_013379.1_CAT1 | 99.7 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CBS1585 | GCA_001738375.1 | Sake | Asia | CM005370.1:680914-683253:- | gene-YLR277C_CBS1585 | rna-NM_001182164.1_CBS1585 | cds-NP_013379.1_CBS1585 | 99.7 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CBS436 | GCA_001738355.1 | Sake | Asia | CM005354.1:665547-667886:- | gene-YLR277C_CBS436 | rna-NM_001182164.1_CBS436 | cds-NP_013379.1_CBS436 | 99.7 | 100.0 | Mismatch | 1 | 1 | 1 | True | True | False | False | False |
| CBS6412 | GCA_001738345.1 | Sake | Asia | CM005338.1:643563-645902:- | gene-YLR277C_CBS6412 | rna-NM_001182164.1_CBS6412 | cds-NP_013379.1_CBS6412 | 99.8 | 100.0 | Mismatch | 1 | 1 | 1 | False | True | False | False | False |
| CBS6413 | GCA_001738265.1 | Sake | Asia | CM005322.1:681571-683910:- | gene-YLR277C_CBS6413 | rna-NM_001182164.1_CBS6413 | cds-NP_013379.1_CBS6413 | 99.7 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CENPK1137D | GCA_000269885.1 | Laboratory | Not Applicable | CM001533.1:681788-684106:- | gene-YLR277C_CENPK1137D | rna-NM_001182164.1_CENPK1137D | cds-NP_013379.1_CENPK1137D | 97.7 | 99.1 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| EthanolRed | GCA_001738615.1 | Bioethanol | Asia | CM005482.1:639490-641829:- | gene-YLR277C_EthanolRed | rna-NM_001182164.1_EthanolRed | cds-NP_013379.1_EthanolRed | 99.8 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| FaliES1 | GCA_001738715.1 | Bioethanol | Asia | CM005546.1:668479-670818:- | gene-YLR277C_FaliES1 | rna-NM_001182164.1_FaliES1 | cds-NP_013379.1_FaliES1 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| JAY291 | GCA_000182315.2 | Bioethanol | South America | ACFL01000359.1:34941-37280:+ | gene-YLR277C_JAY291 | rna-NM_001182164.1_JAY291 | cds-NP_013379.1_JAY291 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| MUCL30387 | GCA_001738515.1 | Bread | Europe | CM005418.1:681090-683429:- | gene-YLR277C_MUCL30387 | rna-NM_001182164.1_MUCL30387 | cds-NP_013379.1_MUCL30387 | 99.6 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL30388 | GCA_001738495.1 | Bread | Europe | CM005450.1:686442-688781:- | gene-YLR277C_MUCL30388 | rna-NM_001182164.1_MUCL30388 | cds-NP_013379.1_MUCL30388 | 99.7 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| MUCL39482 | GCA_001738235.1 | Sake | Asia | CM005290.1:682156-684495:- | gene-YLR277C_MUCL39482 | rna-NM_001182164.1_MUCL39482 | cds-NP_013379.1_MUCL39482 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL42920 | GCA_001738485.1 | Bread | Europe | CM005434.1:677341-679680:- | gene-YLR277C_MUCL42920 | rna-NM_001182164.1_MUCL42920 | cds-NP_013379.1_MUCL42920 | 99.6 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| NCIM3186 | GCA_001029075.1 | Bioethanol | Asia | CP011821.1:697130-699469:- | gene-YLR277C_NCIM3186 | rna-NM_001182164.1_NCIM3186 | cds-NP_013379.1_NCIM3186 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| NCYC1407 | GCA_001738225.1 | Sake | Asia | CM005274.1:669419-671758:- | gene-YLR277C_NCYC1407 | rna-NM_001182164.1_NCYC1407 | cds-NP_013379.1_NCYC1407 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| PE2H3 | GCA_905220325.1 | Bioethanol | South America | HG994151.1:679304-681643:- | gene-YLR277C_PE2H3 | rna-NM_001182164.1_PE2H3 | cds-NP_013379.1_PE2H3 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| PE2H4 | GCA_905220315.1 | Bioethanol | South America | LR999883.1:679048-681387:- | gene-YLR277C_PE2H4 | rna-NM_001182164.1_PE2H4 | cds-NP_013379.1_PE2H4 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| S288C | GCF_000146045.2 | Laboratory | Not applicable | NC_001144.5:697156-699495:- | gene-YLR277C_S288C | rna-NM_001182164.1_S288C | cds-NP_013379.1_S288C | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| SA1 | GCA_004114265.1 | Bioethanol | South America | SDIA01000039.1:85129-87468:+ | gene-YLR277C_SA1 | rna-NM_001182164.1_SA1 | cds-NP_013379.1_SA1 | 99.7 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| ThermosaccDry | GCA_001738605.1 | Bioethanol | Asia | CM005498.1:670402-672741:- | gene-YLR277C_ThermosaccDry | rna-NM_001182164.1_ThermosaccDry | cds-NP_013379.1_ThermosaccDry | 99.8 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| VR1 | GCA_001738595.1 | Bioethanol | South America | CM005466.1:682334-684619:- | gene-YLR277C_VR1 | rna-NM_001182164.1_VR1 | cds-NP_013379.1_VR1 | 97.3 | 97.6 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| ZTW1 | GCA_000308935.1 | Bioethanol | Asia | AMDD01000025.1:8785-11124:- | gene-YLR277C_ZTW1 | rna-NM_001182164.1_ZTW1 | cds-NP_013379.1_ZTW1 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| Sparadoxus | GCF_002079055.1 | Not applicable | Not applicable | NC_047498.1:656519-658861:- | gene-YLR277C_Sparadoxus | rna-NM_001182164.1_Sparadoxus | cds-NP_013379.1_Sparadoxus | 91.3 | 99.8 | Verified | 1 | 1 | 1 | False | True | False | False | False |