Gene name: XRN1
Reference locus (S288C): YGL173C
Gene biotype: protein_coding
Description: 5'-3' exoribonuclease 1; Evolutionarily-conserved 5'-3' exonuclease; component of cytoplasmic processing (P) bodies involved in mRNA decay; also enters the nucleus and positively regulates transcription initiation and elongation; plays a role in microtubule-mediated processes, filamentous growth, ribosomal RNA maturation, and telomere maintenance; activated by the scavenger decapping enzyme Dcs1p
Top 10 interactors (score): PAT1 (0.999); NAM7 (0.999); LSM3 (0.999); LSM1 (0.999); DCP2 (0.999); EDC3 (0.999); RAT1 (0.999); DCP1 (0.999); DHH1 (0.997); SKI2 (0.994); DIS3 (0.989); RRP6 (0.988); LSM2 (0.988); SCD6 (0.987); CDC33 (0.985); LSM7 (0.983); NMD2 (0.983); CDC39 (0.982); LSM4 (0.978); SKI3 (0.978)
Homologues (species, bitscore): XRN1 (Homo sapiens, 720.7); Xrn1 (Mus musculus, 713.0); xrn1 (Danio rerio, 743.8); xrn1 (Xenopus tropicalis, 709.5); pcm (Drosophila melanogaster, 633.3); xrn-1 (Caenorhabditis elegans, 704.1); XRN3 (Arabidopsis thaliana, 452.6)
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 | CM005301.1:178099-182685:- | gene-YGL173C_AKU4011 | rna-NM_001181038.1_AKU4011 | cds-NP_011342.1_AKU4011 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| BG1 | GCA_001932575.1 | Bioethanol | South America | MSHP01000132.1:227677-232263:+ | gene-YGL173C_BG1 | rna-NM_001181038.1_BG1 | cds-NP_011342.1_BG1 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| Bruggeman | GCA_001738585.1 | Bread | Not Applicable | CM005509.1:180292-184878:- | gene-YGL173C_Bruggeman | rna-NM_001181038.1_Bruggeman | cds-NP_011342.1_Bruggeman | 99.4 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CAT1 | GCA_001738705.1 | Bioethanol | South America | CM005525.1:176162-180748:- | gene-YGL173C_CAT1 | rna-NM_001181038.1_CAT1 | cds-NP_011342.1_CAT1 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CBS1585 | GCA_001738375.1 | Sake | Asia | CM005365.1:181238-185824:- | gene-YGL173C_CBS1585 | rna-NM_001181038.1_CBS1585 | cds-NP_011342.1_CBS1585 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CBS436 | GCA_001738355.1 | Sake | Asia | CM005349.1:176152-180738:- | gene-YGL173C_CBS436 | rna-NM_001181038.1_CBS436 | cds-NP_011342.1_CBS436 | 99.4 | 100.0 | Mismatch | 1 | 1 | 1 | False | True | False | False | False |
| CBS6412 | GCA_001738345.1 | Sake | Asia | CM005333.1:167701-172287:- | gene-YGL173C_CBS6412 | rna-NM_001181038.1_CBS6412 | cds-NP_011342.1_CBS6412 | 99.5 | 100.0 | Mismatch | 1 | 1 | 1 | False | True | False | False | False |
| CBS6413 | GCA_001738265.1 | Sake | Asia | CM005317.1:175550-180136:- | gene-YGL173C_CBS6413 | rna-NM_001181038.1_CBS6413 | cds-NP_011342.1_CBS6413 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CENPK1137D | GCA_000269885.1 | Laboratory | Not Applicable | CM001528.1:175718-180304:- | gene-YGL173C_CENPK1137D | rna-NM_001181038.1_CENPK1137D | cds-NP_011342.1_CENPK1137D | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| EthanolRed | GCA_001738615.1 | Bioethanol | Asia | CM005477.1:167906-172492:- | gene-YGL173C_EthanolRed | rna-NM_001181038.1_EthanolRed | cds-NP_011342.1_EthanolRed | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| FaliES1 | GCA_001738715.1 | Bioethanol | Asia | CM005541.1:169152-173738:- | gene-YGL173C_FaliES1 | rna-NM_001181038.1_FaliES1 | cds-NP_011342.1_FaliES1 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| JAY291 | GCA_000182315.2 | Bioethanol | South America | ACFL01000090.1:19386-23972:- | gene-YGL173C_JAY291 | rna-NM_001181038.1_JAY291 | cds-NP_011342.1_JAY291 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL30387 | GCA_001738515.1 | Bread | Europe | CM005413.1:177543-182126:- | gene-YGL173C_MUCL30387 | rna-NM_001181038.1_MUCL30387 | cds-NP_011342.1_MUCL30387 | 99.4 | 99.9 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL30388 | GCA_001738495.1 | Bread | Europe | CM005445.1:180630-185216:- | gene-YGL173C_MUCL30388 | rna-NM_001181038.1_MUCL30388 | cds-NP_011342.1_MUCL30388 | 99.4 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL39482 | GCA_001738235.1 | Sake | Asia | CM005285.1:178262-182848:- | gene-YGL173C_MUCL39482 | rna-NM_001181038.1_MUCL39482 | cds-NP_011342.1_MUCL39482 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL42920 | GCA_001738485.1 | Bread | Europe | CM005429.1:180847-185433:- | gene-YGL173C_MUCL42920 | rna-NM_001181038.1_MUCL42920 | cds-NP_011342.1_MUCL42920 | 99.4 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| NCIM3186 | GCA_001029075.1 | Bioethanol | Asia | CP011816.1:175527-180113:- | gene-YGL173C_NCIM3186 | rna-NM_001181038.1_NCIM3186 | cds-NP_011342.1_NCIM3186 | 99.4 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| NCYC1407 | GCA_001738225.1 | Sake | Asia | CM005269.1:169726-174312:- | gene-YGL173C_NCYC1407 | rna-NM_001181038.1_NCYC1407 | cds-NP_011342.1_NCYC1407 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| PE2H3 | GCA_905220325.1 | Bioethanol | South America | HG994146.1:171686-176272:- | gene-YGL173C_PE2H3 | rna-NM_001181038.1_PE2H3 | cds-NP_011342.1_PE2H3 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| PE2H4 | GCA_905220315.1 | Bioethanol | South America | LR999878.1:171234-175820:- | gene-YGL173C_PE2H4 | rna-NM_001181038.1_PE2H4 | cds-NP_011342.1_PE2H4 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| S288C | GCF_000146045.2 | Laboratory | Not applicable | NC_001139.9:175527-180113:- | gene-YGL173C_S288C | rna-NM_001181038.1_S288C | cds-NP_011342.1_S288C | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| SA1 | GCA_004114265.1 | Bioethanol | South America | SDIA01000067.1:35344-39930:- | gene-YGL173C_SA1 | rna-NM_001181038.1_SA1 | cds-NP_011342.1_SA1 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| ThermosaccDry | GCA_001738605.1 | Bioethanol | Asia | CM005493.1:169381-173967:- | gene-YGL173C_ThermosaccDry | rna-NM_001181038.1_ThermosaccDry | cds-NP_011342.1_ThermosaccDry | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| VR1 | GCA_001738595.1 | Bioethanol | South America | CM005461.1:176588-181174:- | gene-YGL173C_VR1 | rna-NM_001181038.1_VR1 | cds-NP_011342.1_VR1 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| ZTW1 | GCA_000308935.1 | Bioethanol | Asia | AMDD01000014.1:167831-172417:- | gene-YGL173C_ZTW1 | rna-NM_001181038.1_ZTW1 | cds-NP_011342.1_ZTW1 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| Sparadoxus | GCF_002079055.1 | Not applicable | Not applicable | NC_047493.1:174702-179267:- | gene-YGL173C_Sparadoxus | rna-NM_001181038.1_Sparadoxus | cds-NP_011342.1_Sparadoxus | 90.8 | 99.4 | Verified | 1 | 1 | 1 | False | True | False | False | False |