Gene name: VPS5
Reference locus (S288C): YOR069W
Gene biotype: protein_coding
Description: Nexin-1 homolog; required for localizing membrane proteins from a prevacuolar/late endosomal compartment back to late Golgi; structural component of retromer membrane coat complex; forms a retromer subcomplex with Vps17p; required for recruiting the retromer complex to the endosome membranes; VPS5 has a paralog, YKR078W, that arose from the whole genome duplication
Top 10 interactors (score): PEP8 (0.999); VPS35 (0.999); VPS17 (0.999); VPS29 (0.999); SNX3 (0.988); VPS27 (0.985); PEP1 (0.97); MVP1 (0.906); SNX4 (0.892); YPT7 (0.877); SNX41 (0.815); VPS21 (0.802); RVS167 (0.767); MUK1 (0.765); CHC1 (0.749); PRC1 (0.747); YPT6 (0.735); VPS34 (0.733); VPS1 (0.722); SUP35 (0.704)
Homologues (species, bitscore): SNX2 (Homo sapiens, 131.3); Snx1 (Mus musculus, 135.6); snx1a (Danio rerio, 125.9); snx1 (Xenopus tropicalis, 132.1); Snx1 (Drosophila melanogaster, 114.4); snx-1 (Caenorhabditis elegans, 81.6); SNX1 (Arabidopsis thaliana, 83.6)
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 | CM005309.1:438102-440129:+ | gene-YOR069W_AKU4011 | rna-NM_001183488.1_AKU4011 | cds-NP_014712.2_AKU4011 | 99.9 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| BG1 | GCA_001932575.1 | Bioethanol | South America | MSHP01000171.1:139572-141599:- | gene-YOR069W_BG1 | rna-NM_001183488.1_BG1 | cds-NP_014712.2_BG1 | 99.4 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| Bruggeman | GCA_001738585.1 | Bread | Not Applicable | CM005517.1:440816-442843:+ | gene-YOR069W_Bruggeman | rna-NM_001183488.1_Bruggeman | cds-NP_014712.2_Bruggeman | 99.4 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CAT1 | GCA_001738705.1 | Bioethanol | South America | CM005533.1:439572-441599:+ | gene-YOR069W_CAT1 | rna-NM_001183488.1_CAT1 | cds-NP_014712.2_CAT1 | 99.7 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CBS1585 | GCA_001738375.1 | Sake | Asia | CM005373.1:432822-434849:+ | gene-YOR069W_CBS1585 | rna-NM_001183488.1_CBS1585 | cds-NP_014712.2_CBS1585 | 99.9 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| CBS436 | GCA_001738355.1 | Sake | Asia | CM005357.1:437100-439127:+ | gene-YOR069W_CBS436 | rna-NM_001183488.1_CBS436 | cds-NP_014712.2_CBS436 | 99.4 | 100.0 | Mismatch | 1 | 1 | 1 | False | True | False | False | False |
| CBS6412 | GCA_001738345.1 | Sake | Asia | CM005341.1:432112-434139:+ | gene-YOR069W_CBS6412 | rna-NM_001183488.1_CBS6412 | cds-NP_014712.2_CBS6412 | 99.9 | 100.0 | Mismatch | 1 | 1 | 1 | True | True | False | False | False |
| CBS6413 | GCA_001738265.1 | Sake | Asia | CM005325.1:439429-441456:+ | gene-YOR069W_CBS6413 | rna-NM_001183488.1_CBS6413 | cds-NP_014712.2_CBS6413 | 99.9 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| CENPK1137D | GCA_000269885.1 | Laboratory | Not Applicable | CM001536.1:453750-455777:+ | gene-YOR069W_CENPK1137D | rna-NM_001183488.1_CENPK1137D | cds-NP_014712.2_CENPK1137D | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| EthanolRed | GCA_001738615.1 | Bioethanol | Asia | CM005485.1:434814-436841:+ | gene-YOR069W_EthanolRed | rna-NM_001183488.1_EthanolRed | cds-NP_014712.2_EthanolRed | 99.9 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| FaliES1 | GCA_001738715.1 | Bioethanol | Asia | CM005549.1:438143-440170:+ | gene-YOR069W_FaliES1 | rna-NM_001183488.1_FaliES1 | cds-NP_014712.2_FaliES1 | 99.9 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| JAY291 | GCA_000182315.2 | Bioethanol | South America | ACFL01000407.1:4187-6214:- | gene-YOR069W_JAY291 | rna-NM_001183488.1_JAY291 | cds-NP_014712.2_JAY291 | 99.3 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL30387 | GCA_001738515.1 | Bread | Europe | CM005421.1:445598-447625:+ | gene-YOR069W_MUCL30387 | rna-NM_001183488.1_MUCL30387 | cds-NP_014712.2_MUCL30387 | 99.4 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL30388 | GCA_001738495.1 | Bread | Europe | CM005453.1:450008-452035:+ | gene-YOR069W_MUCL30388 | rna-NM_001183488.1_MUCL30388 | cds-NP_014712.2_MUCL30388 | 99.4 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL39482 | GCA_001738235.1 | Sake | Asia | CM005293.1:440290-442317:+ | gene-YOR069W_MUCL39482 | rna-NM_001183488.1_MUCL39482 | cds-NP_014712.2_MUCL39482 | 99.9 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| MUCL42920 | GCA_001738485.1 | Bread | Europe | CM005437.1:455421-457448:+ | gene-YOR069W_MUCL42920 | rna-NM_001183488.1_MUCL42920 | cds-NP_014712.2_MUCL42920 | 99.4 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| NCIM3186 | GCA_001029075.1 | Bioethanol | Asia | CP011824.1:453657-455684:+ | gene-YOR069W_NCIM3186 | rna-NM_001183488.1_NCIM3186 | cds-NP_014712.2_NCIM3186 | 99.3 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| NCYC1407 | GCA_001738225.1 | Sake | Asia | CM005277.1:447208-449235:+ | gene-YOR069W_NCYC1407 | rna-NM_001183488.1_NCYC1407 | cds-NP_014712.2_NCYC1407 | 99.9 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| PE2H3 | GCA_905220325.1 | Bioethanol | South America | HG994154.1:445801-447828:+ | gene-YOR069W_PE2H3 | rna-NM_001183488.1_PE2H3 | cds-NP_014712.2_PE2H3 | 99.3 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| PE2H4 | GCA_905220315.1 | Bioethanol | South America | LR999886.1:456182-458209:+ | gene-YOR069W_PE2H4 | rna-NM_001183488.1_PE2H4 | cds-NP_014712.2_PE2H4 | 99.3 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| S288C | GCF_000146045.2 | Laboratory | Not applicable | NC_001147.6:453768-455795:+ | gene-YOR069W_S288C | rna-NM_001183488.1_S288C | cds-NP_014712.2_S288C | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| SA1 | GCA_004114265.1 | Bioethanol | South America | SDIA01000091.1:31851-33878:- | gene-YOR069W_SA1 | rna-NM_001183488.1_SA1 | cds-NP_014712.2_SA1 | 99.7 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| ThermosaccDry | GCA_001738605.1 | Bioethanol | Asia | CM005501.1:437299-439326:+ | gene-YOR069W_ThermosaccDry | rna-NM_001183488.1_ThermosaccDry | cds-NP_014712.2_ThermosaccDry | 99.9 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| VR1 | GCA_001738595.1 | Bioethanol | South America | CM005469.1:438538-440565:+ | gene-YOR069W_VR1 | rna-NM_001183488.1_VR1 | cds-NP_014712.2_VR1 | 99.4 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| ZTW1 | GCA_000308935.1 | Bioethanol | Asia | AMDD01000032.1:171299-173326:+ | gene-YOR069W_ZTW1 | rna-NM_001183488.1_ZTW1 | cds-NP_014712.2_ZTW1 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| Sparadoxus | GCF_002079055.1 | Not applicable | Not applicable | NC_047501.1:442863-444899:+ | gene-YOR069W_Sparadoxus | rna-NM_001183488.1_Sparadoxus | cds-NP_014712.2_Sparadoxus | 87.5 | 99.8 | Verified | 1 | 1 | 1 | False | True | False | False | False |