Gene name: VPS53
Reference locus (S288C): YJL029C
Gene biotype: protein_coding
Description: Vacuolar protein sorting-associated protein 53; Component of the GARP (Golgi-associated retrograde protein) complex; GARP is required for the recycling of proteins from endosomes to the late Golgi, and for mitosis after DNA damage induced checkpoint arrest; required for vacuolar protein sorting; members of the GARP complex are Vps51p-Vps52p-Vps53p-Vps54p; human ortholog is implicated in progressive cerebello-cerebral atrophy type 2 (PCCA2)
Top 10 interactors (score): VPS52 (0.999); VPS54 (0.999); YPT6 (0.99); VPS51 (0.988); COG4 (0.983); COG8 (0.973); COG6 (0.971); TLG1 (0.96); COG3 (0.956); TLG2 (0.954); VPS45 (0.883); SEC6 (0.874); VPS35 (0.866); BET5 (0.852); SEC5 (0.836); EXO70 (0.834); TRS23 (0.832); SLY1 (0.824); ENV7 (0.822); IMH1 (0.811)
Homologues (species, bitscore): VPS53 (Homo sapiens, 142.9); Vps53 (Mus musculus, 139.4); vps53 (Danio rerio, 144.8); vps53 (Xenopus tropicalis, 132.1); CG3338 (Drosophila melanogaster, 136.7); vps-53 (Caenorhabditis elegans, 114.8); HIT1 (Arabidopsis thaliana, 107.8)
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 | CM005304.1:371343-373811:- | gene-YJL029C_AKU4011 | rna-NM_001181463.1_AKU4011 | cds-NP_012505.1_AKU4011 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| BG1 | GCA_001932575.1 | Bioethanol | South America | MSHP01000190.1:240273-242741:+ | gene-YJL029C_BG1 | rna-NM_001181463.1_BG1 | cds-NP_012505.1_BG1 | 99.4 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| Bruggeman | GCA_001738585.1 | Bread | Not Applicable | CM005512.1:385538-388006:- | gene-YJL029C_Bruggeman | rna-NM_001181463.1_Bruggeman | cds-NP_012505.1_Bruggeman | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CAT1 | GCA_001738705.1 | Bioethanol | South America | CM005528.1:389492-391960:- | gene-YJL029C_CAT1 | rna-NM_001181463.1_CAT1 | cds-NP_012505.1_CAT1 | 99.4 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CBS1585 | GCA_001738375.1 | Sake | Asia | CM005368.1:383009-385477:- | gene-YJL029C_CBS1585 | rna-NM_001181463.1_CBS1585 | cds-NP_012505.1_CBS1585 | 99.7 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CBS436 | GCA_001738355.1 | Sake | Asia | CM005352.1:401365-403833:- | gene-YJL029C_CBS436 | rna-NM_001181463.1_CBS436 | cds-NP_012505.1_CBS436 | 99.5 | 100.0 | Mismatch | 1 | 1 | 1 | False | True | False | False | False |
| CBS6412 | GCA_001738345.1 | Sake | Asia | CM005336.1:371605-374073:- | gene-YJL029C_CBS6412 | rna-NM_001181463.1_CBS6412 | cds-NP_012505.1_CBS6412 | 99.7 | 100.0 | Mismatch | 1 | 1 | 1 | False | True | False | False | False |
| CBS6413 | GCA_001738265.1 | Sake | Asia | CM005320.1:373485-375953:- | gene-YJL029C_CBS6413 | rna-NM_001181463.1_CBS6413 | cds-NP_012505.1_CBS6413 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CENPK1137D | GCA_000269885.1 | Laboratory | Not Applicable | CM001531.1:370811-373279:- | gene-YJL029C_CENPK1137D | rna-NM_001181463.1_CENPK1137D | cds-NP_012505.1_CENPK1137D | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| EthanolRed | GCA_001738615.1 | Bioethanol | Asia | CM005480.1:374560-377028:- | gene-YJL029C_EthanolRed | rna-NM_001181463.1_EthanolRed | cds-NP_012505.1_EthanolRed | 99.7 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| FaliES1 | GCA_001738715.1 | Bioethanol | Asia | CM005544.1:387008-389476:- | gene-YJL029C_FaliES1 | rna-NM_001181463.1_FaliES1 | cds-NP_012505.1_FaliES1 | 99.7 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| JAY291 | GCA_000182315.2 | Bioethanol | South America | ACFL01000200.1:25954-28422:+ | gene-YJL029C_JAY291 | rna-NM_001181463.1_JAY291 | cds-NP_012505.1_JAY291 | 99.4 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL30387 | GCA_001738515.1 | Bread | Europe | CM005416.1:385779-388247:- | gene-YJL029C_MUCL30387 | rna-NM_001181463.1_MUCL30387 | cds-NP_012505.1_MUCL30387 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL30388 | GCA_001738495.1 | Bread | Europe | CM005448.1:381923-384391:- | gene-YJL029C_MUCL30388 | rna-NM_001181463.1_MUCL30388 | cds-NP_012505.1_MUCL30388 | 99.3 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL39482 | GCA_001738235.1 | Sake | Asia | CM005288.1:376333-378801:- | gene-YJL029C_MUCL39482 | rna-NM_001181463.1_MUCL39482 | cds-NP_012505.1_MUCL39482 | 99.7 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL42920 | GCA_001738485.1 | Bread | Europe | CM005432.1:381667-384135:- | gene-YJL029C_MUCL42920 | rna-NM_001181463.1_MUCL42920 | cds-NP_012505.1_MUCL42920 | 99.3 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| NCIM3186 | GCA_001029075.1 | Bioethanol | Asia | CP011819.1:388364-390832:- | gene-YJL029C_NCIM3186 | rna-NM_001181463.1_NCIM3186 | cds-NP_012505.1_NCIM3186 | 99.2 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| NCYC1407 | GCA_001738225.1 | Sake | Asia | CM005272.1:374280-376748:- | gene-YJL029C_NCYC1407 | rna-NM_001181463.1_NCYC1407 | cds-NP_012505.1_NCYC1407 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| PE2H3 | GCA_905220325.1 | Bioethanol | South America | HG994149.1:386355-388823:- | gene-YJL029C_PE2H3 | rna-NM_001181463.1_PE2H3 | cds-NP_012505.1_PE2H3 | 99.4 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| PE2H4 | GCA_905220315.1 | Bioethanol | South America | LR999881.1:386001-388469:- | gene-YJL029C_PE2H4 | rna-NM_001181463.1_PE2H4 | cds-NP_012505.1_PE2H4 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| S288C | GCF_000146045.2 | Laboratory | Not applicable | NC_001142.9:388385-390853:- | gene-YJL029C_S288C | rna-NM_001181463.1_S288C | cds-NP_012505.1_S288C | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| SA1 | GCA_004114265.1 | Bioethanol | South America | SDIA01000003.1:183885-186353:- | gene-YJL029C_SA1 | rna-NM_001181463.1_SA1 | cds-NP_012505.1_SA1 | 99.4 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| ThermosaccDry | GCA_001738605.1 | Bioethanol | Asia | CM005496.1:380669-383137:- | gene-YJL029C_ThermosaccDry | rna-NM_001181463.1_ThermosaccDry | cds-NP_012505.1_ThermosaccDry | 99.7 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| VR1 | GCA_001738595.1 | Bioethanol | South America | CM005464.1:382511-384979:- | gene-YJL029C_VR1 | rna-NM_001181463.1_VR1 | cds-NP_012505.1_VR1 | 99.3 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| ZTW1 | GCA_000308935.1 | Bioethanol | Asia | AMDD01000021.1:361334-363802:- | gene-YJL029C_ZTW1 | rna-NM_001181463.1_ZTW1 | cds-NP_012505.1_ZTW1 | 99.7 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| Sparadoxus | GCF_002079055.1 | Not applicable | Not applicable | NC_047496.1:386573-389041:- | gene-YJL029C_Sparadoxus | rna-NM_001181463.1_Sparadoxus | cds-NP_012505.1_Sparadoxus | 89.9 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |