Gene name: UFD4
Reference locus (S288C): YKL010C
Gene biotype: protein_coding
Description: Ubiquitin-protein ligase (E3); interacts with Rpt4p and Rpt6p, two subunits of the 19S particle of the 26S proteasome; cytoplasmic E3 involved in the degradation of ubiquitin fusion proteins; relative distribution to the nucleus increases upon DNA replication stress
Top 10 interactors (score): UBR1 (0.997); UFD2 (0.995); UBC4 (0.983); SPT6 (0.975); UBP15 (0.968); UBP2 (0.967); PUF3 (0.964); FSF1 (0.96); TOM1 (0.956); RAD6 (0.947); UBP6 (0.946); SSN2 (0.944); JHD1 (0.939); VMS1 (0.925); UBC5 (0.921); HYM1 (0.918); SWR1 (0.917); UBR2 (0.911); UBC6 (0.907); DOA1 (0.9)
Homologues (species, bitscore): TRIP12 (Homo sapiens, 350.9); Trip12 (Mus musculus, 344.4); trip12 (Danio rerio, 337.0); trip12 (Xenopus tropicalis, 332.8); ctrip (Drosophila melanogaster, 267.3); hecd-1 (Caenorhabditis elegans, 244.6); UPL4 (Arabidopsis thaliana, 334.3)
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 | CM005305.1:407442-411893:- | gene-YKL010C_AKU4011 | rna-NM_001179576.3_AKU4011 | cds-NP_012915.3_AKU4011 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| BG1 | GCA_001932575.1 | Bioethanol | South America | MSHP01000113.1:232010-236461:+ | gene-YKL010C_BG1 | rna-NM_001179576.3_BG1 | cds-NP_012915.3_BG1 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| Bruggeman | GCA_001738585.1 | Bread | Not Applicable | CM005513.1:429147-433598:- | gene-YKL010C_Bruggeman | rna-NM_001179576.3_Bruggeman | cds-NP_012915.3_Bruggeman | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CAT1 | GCA_001738705.1 | Bioethanol | South America | CM005529.1:424254-428705:- | gene-YKL010C_CAT1 | rna-NM_001179576.3_CAT1 | cds-NP_012915.3_CAT1 | 99.6 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CBS1585 | GCA_001738375.1 | Sake | Asia | CM005369.1:420162-424613:- | gene-YKL010C_CBS1585 | rna-NM_001179576.3_CBS1585 | cds-NP_012915.3_CBS1585 | 99.9 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CBS436 | GCA_001738355.1 | Sake | Asia | CM005353.1:419025-423476:- | gene-YKL010C_CBS436 | rna-NM_001179576.3_CBS436 | cds-NP_012915.3_CBS436 | 99.5 | 100.0 | Mismatch | 1 | 1 | 1 | False | True | False | False | False |
| CBS6412 | GCA_001738345.1 | Sake | Asia | CM005337.1:404318-408769:- | gene-YKL010C_CBS6412 | rna-NM_001179576.3_CBS6412 | cds-NP_012915.3_CBS6412 | 99.8 | 100.0 | Mismatch | 1 | 1 | 1 | False | True | False | False | False |
| CBS6413 | GCA_001738265.1 | Sake | Asia | CM005321.1:420017-424468:- | gene-YKL010C_CBS6413 | rna-NM_001179576.3_CBS6413 | cds-NP_012915.3_CBS6413 | 99.9 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CENPK1137D | GCA_000269885.1 | Laboratory | Not Applicable | CM001532.1:421101-425552:- | gene-YKL010C_CENPK1137D | rna-NM_001179576.3_CENPK1137D | cds-NP_012915.3_CENPK1137D | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| EthanolRed | GCA_001738615.1 | Bioethanol | Asia | CM005481.1:417939-422390:- | gene-YKL010C_EthanolRed | rna-NM_001179576.3_EthanolRed | cds-NP_012915.3_EthanolRed | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| FaliES1 | GCA_001738715.1 | Bioethanol | Asia | CM005545.1:420029-424480:- | gene-YKL010C_FaliES1 | rna-NM_001179576.3_FaliES1 | cds-NP_012915.3_FaliES1 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| JAY291 | GCA_000182315.2 | Bioethanol | South America | ACFL01000142.1:6571-11022:+ | gene-YKL010C_JAY291 | rna-NM_001179576.3_JAY291 | cds-NP_012915.3_JAY291 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL30387 | GCA_001738515.1 | Bread | Europe | CM005417.1:428462-432913:- | gene-YKL010C_MUCL30387 | rna-NM_001179576.3_MUCL30387 | cds-NP_012915.3_MUCL30387 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL30388 | GCA_001738495.1 | Bread | Europe | CM005449.1:424071-428522:- | gene-YKL010C_MUCL30388 | rna-NM_001179576.3_MUCL30388 | cds-NP_012915.3_MUCL30388 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL39482 | GCA_001738235.1 | Sake | Asia | CM005289.1:419479-423930:- | gene-YKL010C_MUCL39482 | rna-NM_001179576.3_MUCL39482 | cds-NP_012915.3_MUCL39482 | 99.9 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL42920 | GCA_001738485.1 | Bread | Europe | CM005433.1:425308-429759:- | gene-YKL010C_MUCL42920 | rna-NM_001179576.3_MUCL42920 | cds-NP_012915.3_MUCL42920 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| NCIM3186 | GCA_001029075.1 | Bioethanol | Asia | CP011820.1:421413-425864:- | gene-YKL010C_NCIM3186 | rna-NM_001179576.3_NCIM3186 | cds-NP_012915.3_NCIM3186 | 97.7 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| NCYC1407 | GCA_001738225.1 | Sake | Asia | CM005273.1:419671-424122:- | gene-YKL010C_NCYC1407 | rna-NM_001179576.3_NCYC1407 | cds-NP_012915.3_NCYC1407 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| PE2H3 | GCA_905220325.1 | Bioethanol | South America | HG994150.1:444362-448813:- | gene-YKL010C_PE2H3 | rna-NM_001179576.3_PE2H3 | cds-NP_012915.3_PE2H3 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| PE2H4 | GCA_905220315.1 | Bioethanol | South America | LR999882.1:429104-433555:- | gene-YKL010C_PE2H4 | rna-NM_001179576.3_PE2H4 | cds-NP_012915.3_PE2H4 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| S288C | GCF_000146045.2 | Laboratory | Not applicable | NC_001143.9:421424-425875:- | gene-YKL010C_S288C | rna-NM_001179576.3_S288C | cds-NP_012915.3_S288C | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| SA1 | GCA_004114265.1 | Bioethanol | South America | SDIA01000027.1:99706-104157:- | gene-YKL010C_SA1 | rna-NM_001179576.3_SA1 | cds-NP_012915.3_SA1 | 99.6 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| ThermosaccDry | GCA_001738605.1 | Bioethanol | Asia | CM005497.1:420128-424579:- | gene-YKL010C_ThermosaccDry | rna-NM_001179576.3_ThermosaccDry | cds-NP_012915.3_ThermosaccDry | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| VR1 | GCA_001738595.1 | Bioethanol | South America | CM005465.1:419384-423835:- | gene-YKL010C_VR1 | rna-NM_001179576.3_VR1 | cds-NP_012915.3_VR1 | 99.6 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| ZTW1 | GCA_000308935.1 | Bioethanol | Asia | AMDD01000022.1:418156-422607:- | gene-YKL010C_ZTW1 | rna-NM_001179576.3_ZTW1 | cds-NP_012915.3_ZTW1 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| Sparadoxus | GCF_002079055.1 | Not applicable | Not applicable | NC_047497.1:443132-447583:- | gene-YKL010C_Sparadoxus | rna-NM_001179576.3_Sparadoxus | cds-NP_012915.3_Sparadoxus | 90.0 | 99.9 | Verified | 1 | 1 | 1 | False | True | False | False | False |