Gene name: PCF11
Reference locus (S288C): YDR228C
Gene biotype: protein_coding
Description: Protein PCF11; mRNA 3' end processing factor; essential component of cleavage and polyadenylation factor IA (CF IA), involved in pre-mRNA 3' end processing and in transcription termination; binds C-terminal domain of largest subunit of RNA pol II (Rpo21p); required for gene looping; relocalizes to the cytosol in response to hypoxia
Top 10 interactors (score): RNA14 (0.999); CLP1 (0.999); FIP1 (0.999); RNA15 (0.999); MPE1 (0.998); CFT2 (0.998); SSU72 (0.998); YRA1 (0.998); PAP1 (0.997); YSH1 (0.997); YTH1 (0.997); CFT1 (0.997); PTA1 (0.995); RPO21 (0.992); RAT1 (0.992); RTT103 (0.989); SUB2 (0.986); SER2 (0.984); PFS2 (0.981); SYC1 (0.974)
Homologues (species, bitscore): PCF11 (Homo sapiens, 83.6); Pcf11 (Mus musculus, 83.2); pcf11 (Danio rerio, 89.4); pcf11 (Xenopus tropicalis, 84.7); Inr-a (Drosophila melanogaster, 65.5); pcf-11 (Caenorhabditis elegans, 63.9); PCFS4 (Arabidopsis thaliana, 81.6)
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 | CM005298.1:878628-880511:- | gene-YDR228C_AKU4011 | rna-NM_001180536.3_AKU4011 | cds-NP_010514.3_AKU4011 | 99.0 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| BG1 | GCA_001932575.1 | Bioethanol | South America | MSHP01000080.1:245319-247199:+ | gene-YDR228C_BG1 | rna-NM_001180536.3_BG1 | cds-NP_010514.3_BG1 | 99.9 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| Bruggeman | GCA_001738585.1 | Bread | Not Applicable | CM005506.1:910945-912819:- | gene-YDR228C_Bruggeman | rna-NM_001180536.3_Bruggeman | cds-NP_010514.3_Bruggeman | 98.9 | 99.6 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CAT1 | GCA_001738705.1 | Bioethanol | South America | CM005522.1:898222-900102:- | gene-YDR228C_CAT1 | rna-NM_001180536.3_CAT1 | cds-NP_010514.3_CAT1 | 99.9 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CBS1585 | GCA_001738375.1 | Sake | Asia | CM005362.1:868979-870862:- | gene-YDR228C_CBS1585 | rna-NM_001180536.3_CBS1585 | cds-NP_010514.3_CBS1585 | 99.0 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CBS436 | GCA_001738355.1 | Sake | Asia | CM005346.1:897986-899866:- | gene-YDR228C_CBS436 | rna-NM_001180536.3_CBS436 | cds-NP_010514.3_CBS436 | 99.8 | 100.0 | Mismatch | 1 | 1 | 1 | False | True | False | False | False |
| CBS6412 | GCA_001738345.1 | Sake | Asia | CM005330.1:865737-867620:- | gene-YDR228C_CBS6412 | rna-NM_001180536.3_CBS6412 | cds-NP_010514.3_CBS6412 | 99.0 | 100.0 | Mismatch | 1 | 1 | 1 | False | True | False | False | False |
| CBS6413 | GCA_001738265.1 | Sake | Asia | CM005314.1:896339-898222:- | gene-YDR228C_CBS6413 | rna-NM_001180536.3_CBS6413 | cds-NP_010514.3_CBS6413 | 99.0 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CENPK1137D | GCA_000269885.1 | Laboratory | Not Applicable | CM001525.1:920724-922604:- | gene-YDR228C_CENPK1137D | rna-NM_001180536.3_CENPK1137D | cds-NP_010514.3_CENPK1137D | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| EthanolRed | GCA_001738615.1 | Bioethanol | Asia | CM005474.1:879320-881194:- | gene-YDR228C_EthanolRed | rna-NM_001180536.3_EthanolRed | cds-NP_010514.3_EthanolRed | 98.9 | 99.6 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| FaliES1 | GCA_001738715.1 | Bioethanol | Asia | CM005538.1:887522-889396:- | gene-YDR228C_FaliES1 | rna-NM_001180536.3_FaliES1 | cds-NP_010514.3_FaliES1 | 98.9 | 99.6 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| JAY291 | GCA_000182315.2 | Bioethanol | South America | ACFL01000348.1:22172-24052:+ | gene-YDR228C_JAY291 | rna-NM_001180536.3_JAY291 | cds-NP_010514.3_JAY291 | 99.7 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL30387 | GCA_001738515.1 | Bread | Europe | CM005410.1:896594-898468:- | gene-YDR228C_MUCL30387 | rna-NM_001180536.3_MUCL30387 | cds-NP_010514.3_MUCL30387 | 98.9 | 99.6 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL30388 | GCA_001738495.1 | Bread | Europe | CM005442.1:884848-886722:- | gene-YDR228C_MUCL30388 | rna-NM_001180536.3_MUCL30388 | cds-NP_010514.3_MUCL30388 | 98.9 | 99.6 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL39482 | GCA_001738235.1 | Sake | Asia | CM005282.1:870382-872265:- | gene-YDR228C_MUCL39482 | rna-NM_001180536.3_MUCL39482 | cds-NP_010514.3_MUCL39482 | 99.0 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL42920 | GCA_001738485.1 | Bread | Europe | CM005426.1:809666-811522:- | gene-YDR228C_MUCL42920 | rna-NM_001180536.3_MUCL42920 | cds-NP_010514.3_MUCL42920 | 98.2 | 98.7 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| NCIM3186 | GCA_001029075.1 | Bioethanol | Asia | CP011813.1:921849-923729:- | gene-YDR228C_NCIM3186 | rna-NM_001180536.3_NCIM3186 | cds-NP_010514.3_NCIM3186 | 99.2 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| NCYC1407 | GCA_001738225.1 | Sake | Asia | CM005266.1:874052-875935:- | gene-YDR228C_NCYC1407 | rna-NM_001180536.3_NCYC1407 | cds-NP_010514.3_NCYC1407 | 99.0 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| PE2H3 | GCA_905220325.1 | Bioethanol | South America | HG994143.1:890280-892160:- | gene-YDR228C_PE2H3 | rna-NM_001180536.3_PE2H3 | cds-NP_010514.3_PE2H3 | 99.7 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| PE2H4 | GCA_905220315.1 | Bioethanol | South America | LR999875.1:895559-897439:- | gene-YDR228C_PE2H4 | rna-NM_001180536.3_PE2H4 | cds-NP_010514.3_PE2H4 | 99.9 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| S288C | GCF_000146045.2 | Laboratory | Not applicable | NC_001136.10:921926-923806:- | gene-YDR228C_S288C | rna-NM_001180536.3_S288C | cds-NP_010514.3_S288C | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| SA1 | GCA_004114265.1 | Bioethanol | South America | SDIA01000013.1:128113-129993:- | gene-YDR228C_SA1 | rna-NM_001180536.3_SA1 | cds-NP_010514.3_SA1 | 99.9 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| ThermosaccDry | GCA_001738605.1 | Bioethanol | Asia | CM005490.1:885676-887550:- | gene-YDR228C_ThermosaccDry | rna-NM_001180536.3_ThermosaccDry | cds-NP_010514.3_ThermosaccDry | 98.9 | 99.6 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| VR1 | GCA_001738595.1 | Bioethanol | South America | CM005458.1:900882-902762:- | gene-YDR228C_VR1 | rna-NM_001180536.3_VR1 | cds-NP_010514.3_VR1 | 99.9 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| ZTW1 | GCA_000308935.1 | Bioethanol | Asia | AMDD01000007.1:148390-150264:- | gene-YDR228C_ZTW1 | rna-NM_001180536.3_ZTW1 | cds-NP_010514.3_ZTW1 | 98.9 | 99.6 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| Sparadoxus | GCF_002079055.1 | Not applicable | Not applicable | NC_047490.1:890539-892440:- | gene-YDR228C_Sparadoxus | rna-NM_001180536.3_Sparadoxus | cds-NP_010514.3_Sparadoxus | 89.6 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |