{ "bcoid": "GLY_000231", "title": "Rat Phosphorylation Sites (UniProtKB)", "description": "The Rat Phosphorylation Sites (UniProtKB) dataset contains rat [taxid:10116] UniProtKB canonical accessions ...", "filename": "rat_proteoform_phosphorylation_sites_uniprotkb.csv", "filetype": "csv", "categories": { "species": [ "Rattus norvegicus" ], "molecule": [ "Protein" ], "tag": [ "Phosphorylation Sites" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "P35739-1...", "794..." ], [ "Q63604-1...", "515..." ] ], "headers": [ "uniprotkb_ca...", "phosphorylat..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "phosphorylation_site_uniprotkb" }, { "type": "string", "label": "amino_acid" }, { "type": "string", "label": "kinase_uniprotkb_canonical_ac" }, { "type": "string", "label": "kinase_gene_name" }, { "type": "string", "label": "xref_key" }, { "type": "string", "label": "xref_id" }, { "type": "string", "label": "src_xref_key" }, { "type": "string", "label": "src_xref_id" }, { "type": "string", "label": "phosphorylated_residue" }, { "type": "string", "label": "phosphorylation_annotation" }, { "type": "string", "label": "eco_id" } ], [ "P35739-1", "794", "Tyr", "", "", "protein_xref_uniprotkb", "P35739", "protein_xref_uniprotkb", "P35739", "Phosphotyrosine", "Phosphotyrosine; by autocatalysis", "" ], [ "Q63604-1", "515", "Tyr", "", "", "protein_xref_uniprotkb", "Q63604", "protein_xref_uniprotkb", "Q63604", "Phosphotyrosine", "Phosphotyrosine; by autocatalysis", "" ], [ "Q07303-1", "367", "Tyr", "", "", "protein_xref_uniprotkb", "Q07303", "protein_xref_uniprotkb", "Q07303", "Phosphotyrosine", "Phosphotyrosine; by JAK2", "" ], [ "P35739-1", "499", "Tyr", "", "", "protein_xref_uniprotkb", "P35739", "protein_xref_uniprotkb", "P35739", "Phosphotyrosine", "Phosphotyrosine; by autocatalysis", "" ], [ "Q07303-1", "425", "Tyr", "", "", "protein_xref_uniprotkb", "Q07303", "protein_xref_uniprotkb", "Q07303", "Phosphotyrosine", "Phosphotyrosine; by JAK2", "" ], [ "Q03351-1", "516", "Tyr", "", "", "protein_xref_uniprotkb", "Q03351", "protein_xref_uniprotkb", "Q03351", "Phosphotyrosine", "Phosphotyrosine; by autocatalysis", "" ], [ "Q63604-1", "816", "Tyr", "", "", "protein_xref_uniprotkb", "Q63604", "protein_xref_uniprotkb", "Q63604", "Phosphotyrosine", "Phosphotyrosine; by autocatalysis", "" ], [ "Q9JIX3-1", "114", "Tyr", "", "", "protein_xref_uniprotkb", "Q9JIX3", "protein_xref_uniprotkb", "Q9JIX3", "Phosphotyrosine", "Phosphotyrosine", "ECO_0000250" ], [ "Q03351-1", "859", "Tyr", "", "", "protein_xref_uniprotkb", "Q03351", "protein_xref_uniprotkb", "Q03351", "Phosphotyrosine", "Phosphotyrosine; by autocatalysis", "" ], [ "P84245-1", "32", "Ser", "", "", "protein_xref_uniprotkb", "P84245", "protein_xref_uniprotkb", "P84245", "Phosphoserine", "Phosphoserine", "ECO_0000250" ], [ "Q63604-1", "705", "Tyr", "", "", "protein_xref_uniprotkb", "Q63604", "protein_xref_uniprotkb", "Q63604", "Phosphotyrosine", "Phosphotyrosine; by autocatalysis", "" ], [ "Q04589-1", "766", "Tyr", "", "", "protein_xref_uniprotkb", "Q04589", "protein_xref_uniprotkb", "Q04589", "Phosphotyrosine", "Phosphotyrosine; by autocatalysis", "" ], [ "Q9Z330-1", "515", "Ser", "", "", "protein_xref_uniprotkb", "Q9Z330", "protein_xref_uniprotkb", "Q9Z330", "Phosphoserine", "Phosphoserine", "ECO_0000250" ], [ "P13234-1", "196", "Thr", "", "", "protein_xref_uniprotkb", "P13234", "protein_xref_uniprotkb", "P13234", "Phosphothreonine", "Phosphothreonine; by CaMKK1 and CaMKK2", "" ], [ "P20428-1", "77", "Ser", "", "", "protein_xref_uniprotkb", "P20428", "protein_xref_uniprotkb", "P20428", "Phosphoserine", "Phosphoserine; by CaMK2G", "" ], [ "P47863-1", "180", "Ser", "", "", "protein_xref_uniprotkb", "P47863", "protein_xref_uniprotkb", "P47863", "Phosphoserine", "Phosphoserine; by PKC", "" ], [ "O35274-1", "177", "Ser", "", "", "protein_xref_uniprotkb", "O35274", "protein_xref_uniprotkb", "O35274", "Phosphoserine", "Phosphoserine; by PKA", "" ], [ "P18266-1", "216", "Tyr", "", "", "protein_xref_uniprotkb", "P18266", "protein_xref_uniprotkb", "P18266", "Phosphotyrosine", "Phosphotyrosine", "ECO_0000269" ], [ "P18266-1", "216", "Tyr", "", "", "protein_xref_pubmed", "8382613", "protein_xref_uniprotkb", "P18266", "Phosphotyrosine", "Phosphotyrosine", "ECO_0000269" ], [ "P15387-1", "771", "Ser", "", "", "protein_xref_uniprotkb", "P15387", "protein_xref_uniprotkb", "P15387", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "P15387-1", "771", "Ser", "", "", "protein_xref_pubmed", "16917065", "protein_xref_uniprotkb", "P15387", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "Q07303-1", "453", "Tyr", "", "", "protein_xref_uniprotkb", "Q07303", "protein_xref_uniprotkb", "Q07303", "Phosphotyrosine", "Phosphotyrosine; by JAK2", "" ], [ "Q9R186-1", "201", "Tyr", "", "", "protein_xref_uniprotkb", "Q9R186", "protein_xref_uniprotkb", "Q9R186", "Phosphotyrosine", "Phosphotyrosine; by SRC", "" ], [ "P84092-1", "156", "Thr", "", "", "protein_xref_uniprotkb", "P84092", "protein_xref_uniprotkb", "P84092", "Phosphothreonine", "Phosphothreonine", "ECO_0000250" ], [ "P61810-1", "138", "Thr", "", "", "protein_xref_uniprotkb", "P61810", "protein_xref_uniprotkb", "P61810", "Phosphothreonine", "Phosphothreonine; by CDK5", "" ], [ "P06685-1", "16", "Ser", "", "", "protein_xref_uniprotkb", "P06685", "protein_xref_uniprotkb", "P06685", "Phosphoserine", "Phosphoserine; by PKC", "" ], [ "O35303-1", "635", "Ser", "", "", "protein_xref_uniprotkb", "O35303", "protein_xref_uniprotkb", "O35303", "Phosphoserine", "Phosphoserine; by CDK1", "" ], [ "O08678-1", "219", "Ser", "", "", "protein_xref_uniprotkb", "O08678", "protein_xref_uniprotkb", "O08678", "Phosphoserine", "Phosphoserine; by GSK3-beta", "" ], [ "P11101-1", "101", "Thr", "", "", "protein_xref_uniprotkb", "P11101", "protein_xref_uniprotkb", "P11101", "Phosphothreonine", "Phosphothreonine; by PKA", "" ], [ "O35240-1", "523", "Ser", "", "", "protein_xref_uniprotkb", "O35240", "protein_xref_uniprotkb", "O35240", "Phosphoserine", "Phosphoserine; by PKC", "" ], [ "P18297-1", "214", "Ser", "", "", "protein_xref_uniprotkb", "P18297", "protein_xref_uniprotkb", "P18297", "Phosphoserine", "Phosphoserine; by CaMK2; in vitro", "" ], [ "P97710-1", "477", "Tyr", "", "", "protein_xref_uniprotkb", "P97710", "protein_xref_uniprotkb", "P97710", "Phosphotyrosine", "Phosphotyrosine; by Tyr-kinases", "" ], [ "Q9Z0W5-1", "76", "Ser", "", "", "protein_xref_uniprotkb", "Q9Z0W5", "protein_xref_uniprotkb", "Q9Z0W5", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "Q9Z0W5-1", "76", "Ser", "", "", "protein_xref_pubmed", "22355135", "protein_xref_uniprotkb", "Q9Z0W5", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "P28818-1", "575", "Ser", "", "", "protein_xref_uniprotkb", "P28818", "protein_xref_uniprotkb", "P28818", "Phosphoserine", "Phosphoserine; by PLK2", "" ], [ "P16067-1", "513", "Ser", "", "", "protein_xref_uniprotkb", "P16067", "protein_xref_uniprotkb", "P16067", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "P16067-1", "513", "Ser", "", "", "protein_xref_pubmed", "9624142", "protein_xref_uniprotkb", "P16067", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "P16067-1", "513", "Ser", "", "", "protein_xref_pubmed", "20977274", "protein_xref_uniprotkb", "P16067", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "O88850-1", "359", "Tyr", "", "", "protein_xref_uniprotkb", "O88850", "protein_xref_uniprotkb", "O88850", "Phosphotyrosine", "Phosphotyrosine", "ECO_0000250" ], [ "E9PT37-1", "1046", "Ser", "", "", "protein_xref_uniprotkb", "E9PT37", "protein_xref_uniprotkb", "E9PT37", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "E9PT37-1", "1046", "Ser", "", "", "protein_xref_pubmed", "35394688", "protein_xref_uniprotkb", "E9PT37", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "O08775-1", "1171", "Tyr", "", "", "protein_xref_uniprotkb", "O08775", "protein_xref_uniprotkb", "O08775", "Phosphotyrosine", "Phosphotyrosine; by autocatalysis", "" ], [ "Q63155-1", "1267", "Ser", "", "", "protein_xref_uniprotkb", "Q63155", "protein_xref_uniprotkb", "Q63155", "Phosphoserine", "Phosphoserine; by MAPK1", "" ], [ "Q9QUH6-1", "840", "Ser", "", "", "protein_xref_uniprotkb", "Q9QUH6", "protein_xref_uniprotkb", "Q9QUH6", "Phosphoserine", "Phosphoserine; by PLK2", "" ], [ "P33535-1", "375", "Ser", "", "", "protein_xref_uniprotkb", "P33535", "protein_xref_uniprotkb", "P33535", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "P33535-1", "375", "Ser", "", "", "protein_xref_pubmed", "11278523", "protein_xref_uniprotkb", "P33535", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "Q9QW30-1", "2078", "Ser", "", "", "protein_xref_uniprotkb", "Q9QW30", "protein_xref_uniprotkb", "Q9QW30", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "Q9QW30-1", "2078", "Ser", "", "", "protein_xref_pubmed", "11577080", "protein_xref_uniprotkb", "Q9QW30", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "P10499-1", "446", "Ser", "", "", "protein_xref_uniprotkb", "P10499", "protein_xref_uniprotkb", "P10499", "Phosphoserine", "Phosphoserine; by PKA", "" ], [ "P16067-1", "529", "Thr", "", "", "protein_xref_uniprotkb", "P16067", "protein_xref_uniprotkb", "P16067", "Phosphothreonine", "Phosphothreonine", "ECO_0000269" ], [ "P16067-1", "529", "Thr", "", "", "protein_xref_pubmed", "20977274", "protein_xref_uniprotkb", "P16067", "Phosphothreonine", "Phosphothreonine", "ECO_0000269" ], [ "P17220-1", "121", "Tyr", "", "", "protein_xref_uniprotkb", "P17220", "protein_xref_uniprotkb", "P17220", "Phosphotyrosine", "Phosphotyrosine", "ECO_0000305" ], [ "P17220-1", "121", "Tyr", "", "", "protein_xref_pubmed", "8794741", "protein_xref_uniprotkb", "P17220", "Phosphotyrosine", "Phosphotyrosine", "ECO_0000305" ], [ "P16573-1", "488", "Tyr", "", "", "protein_xref_uniprotkb", "P16573", "protein_xref_uniprotkb", "P16573", "Phosphotyrosine", "Phosphotyrosine; by SRC, LCK, INSR and EGFR", "" ], [ "P15387-1", "457", "Ser", "", "", "protein_xref_uniprotkb", "P15387", "protein_xref_uniprotkb", "P15387", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "P15387-1", "457", "Ser", "", "", "protein_xref_pubmed", "17192433", "protein_xref_uniprotkb", "P15387", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "P15387-1", "457", "Ser", "", "", "protein_xref_pubmed", "18690023", "protein_xref_uniprotkb", "P15387", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "P15387-1", "457", "Ser", "", "", "protein_xref_pubmed", "16917065", "protein_xref_uniprotkb", "P15387", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "Q9JM80-1", "165", "Tyr", "", "", "protein_xref_uniprotkb", "Q9JM80", "protein_xref_uniprotkb", "Q9JM80", "Phosphotyrosine", "Phosphotyrosine", "ECO_0000269" ], [ "Q9JM80-1", "165", "Tyr", "", "", "protein_xref_pubmed", "10918051", "protein_xref_uniprotkb", "Q9JM80", "Phosphotyrosine", "Phosphotyrosine", "ECO_0000269" ], [ "P30936-1", "351", "Ser", "", "", "protein_xref_uniprotkb", "P30936", "protein_xref_uniprotkb", "P30936", "Phosphoserine", "Phosphoserine", "ECO_0000305" ], [ "P30936-1", "351", "Ser", "", "", "protein_xref_pubmed", "9295322", "protein_xref_uniprotkb", "P30936", "Phosphoserine", "Phosphoserine", "ECO_0000305" ], [ "E9PT37-1", "1192", "Ser", "", "", "protein_xref_uniprotkb", "E9PT37", "protein_xref_uniprotkb", "E9PT37", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "E9PT37-1", "1192", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "E9PT37", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "E9PT37-1", "1192", "Ser", "", "", "protein_xref_uniprotkb", "E9PT37", "protein_xref_uniprotkb", "E9PT37", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "E9PT37-1", "1192", "Ser", "", "", "protein_xref_pubmed", "35394688", "protein_xref_uniprotkb", "E9PT37", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "E9PT37-1", "638", "Ser", "", "", "protein_xref_uniprotkb", "E9PT37", "protein_xref_uniprotkb", "E9PT37", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "E9PT37-1", "638", "Ser", "", "", "protein_xref_pubmed", "35394688", "protein_xref_uniprotkb", "E9PT37", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "Q9Z2A6-1", "176", "Thr", "", "", "protein_xref_uniprotkb", "Q9Z2A6", "protein_xref_uniprotkb", "Q9Z2A6", "Phosphothreonine", "Phosphothreonine", "ECO_0000269" ], [ "Q9Z2A6-1", "176", "Thr", "", "", "protein_xref_pubmed", "9891064", "protein_xref_uniprotkb", "Q9Z2A6", "Phosphothreonine", "Phosphothreonine", "ECO_0000269" ], [ "Q63470-1", "321", "Tyr", "", "", "protein_xref_uniprotkb", "Q63470", "protein_xref_uniprotkb", "Q63470", "Phosphotyrosine", "Phosphotyrosine; by autocatalysis", "" ], [ "P10608-1", "262", "Ser", "", "", "protein_xref_uniprotkb", "P10608", "protein_xref_uniprotkb", "P10608", "Phosphoserine", "Phosphoserine; by PKA", "" ], [ "Q63155-1", "1187", "Thr", "", "", "protein_xref_uniprotkb", "Q63155", "protein_xref_uniprotkb", "Q63155", "Phosphothreonine", "Phosphothreonine; by MAPK1", "" ], [ "Q9Z2L0-1", "137", "Ser", "", "", "protein_xref_uniprotkb", "Q9Z2L0", "protein_xref_uniprotkb", "Q9Z2L0", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "Q9Z2L0-1", "137", "Ser", "", "", "protein_xref_pubmed", "17478130", "protein_xref_uniprotkb", "Q9Z2L0", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "P19836-1", "362", "Ser", "", "", "protein_xref_uniprotkb", "P19836", "protein_xref_uniprotkb", "P19836", "Phosphoserine", "Phosphoserine; by CK2", "" ], [ "P29066-1", "412", "Ser", "", "", "protein_xref_uniprotkb", "P29066", "protein_xref_uniprotkb", "P29066", "Phosphoserine", "Phosphoserine; by GRK5", "ECO_0007744" ], [ "P29066-1", "412", "Ser", "", "", "protein_xref_pubmed", "16641100", "protein_xref_uniprotkb", "P29066", "Phosphoserine", "Phosphoserine; by GRK5", "ECO_0007744" ], [ "P29066-1", "412", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "P29066", "Phosphoserine", "Phosphoserine; by GRK5", "ECO_0007744" ], [ "P29066-1", "412", "Ser", "", "", "protein_xref_uniprotkb", "P29066", "protein_xref_uniprotkb", "P29066", "Phosphoserine", "Phosphoserine; by GRK5", "ECO_0000269" ], [ "P29066-1", "412", "Ser", "", "", "protein_xref_pubmed", "9388255", "protein_xref_uniprotkb", "P29066", "Phosphoserine", "Phosphoserine; by GRK5", "ECO_0000269" ], [ "P29066-1", "412", "Ser", "", "", "protein_xref_uniprotkb", "P29066", "protein_xref_uniprotkb", "P29066", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P29066-1", "412", "Ser", "", "", "protein_xref_pubmed", "16641100", "protein_xref_uniprotkb", "P29066", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P29066-1", "412", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "P29066", "Phosphoserine", "Phosphoserine", "ECO_0007744" ] ] }, "readme": "Name\n - Rat Phosphorylation Sites (UniProtKB)\n\nVersion\n - v-2.2.1\n\nCreated on\n - 2019-09-06T14:06:38.959200\n\nModified on\n - 2022-09-26T09:04:48.021609\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Jingyue Wu [jingyue.wu@email.gwu.edu]\n\nAuthors\n - Maria Martin [martin@ebi.ac.uk], Preethi Vasudev [pvasudev@ebi.ac.uk]\n\nChecksum\n - \n\nUsability Domain\n - The Rat Phosphorylation Sites (UniProtKB) dataset contains rat [taxid:10116] UniProtKB canonical accessions with information on reported and predicted phosphorylation sites with evidence in UniProtKB database. The dataset is derived from 2019-09 UniProtKB release. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen. \n\nDescription Domain\n Keywords\n - phosphorylation Sites\n - ptm processing\n - UniProtKB\n\n Pipeline Steps\n - Step-1: The script loads the phosphorylation information from the triplestore containing triples from the nt file and extracts as a csv dataset. \n\nExecution Domain\n Scripts - https://github.com/glygener/glygen-backend-integration/blob/master/dataset-maker/make-proteoform-dataset.py\n\n\n Software Prerequisites\n Name: Python\n Version: 2.7.5\n URI: https://www.python.org/download/releases/2.7.5/\n\nI/O Domain\n Input Subdomain\n Name: uniprot-proteome-rattus-norvegicus.nt\n URI: https:/data.glygen.org/ln2downloads/ebi/2023_07_11/uniprot-proteome-rattus-norvegicus.nt\n Output Subdomain\n Name: rat_proteoform_phosphorylation_sites_uniprotkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/rat_proteoform_phosphorylation_sites_uniprotkb.csv\n Name: rat_proteoform_phosphorylation_sites_uniprotkb.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/rat_proteoform_phosphorylation_sites_uniprotkb.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"3988\"\n Name: \"phosphorylation_site_uniprotkb\"\n Description: \"Site on the protein sequence of the UniProtKB entry where phosphorylation is observed\"\n Unique Values: \"2051\"\n Name: \"amino_acid\"\n Description: \"Three letter abbreviation code of the amino acid\"\n Unique Values: \"4\"\n Name: \"kinase_uniprotkb_canonical_ac\"\n Description: \"The UniProtKB canonical accession for the kinase enzyme that is phosphorylating the protein\"\n Unique Values: \"1\"\n Name: \"kinase_gene_name\"\n Description: \"\"\n Unique Values: \"1\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"2\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"4126\"\n Name: \"src_xref_key\"\n Description: \"Source Xref key\"\n Unique Values: \"1\"\n Name: \"src_xref_id\"\n Description: \"Source X-ref ID\"\n Unique Values: \"4000\"\n Name: \"phosphorylated_residue\"\n Description: \"The amino acid that is modified by phosphorylation\"\n Unique Values: \"4\"\n Name: \"phosphorylation_annotation\"\n Description: \"The phosphorylation annotation in UniProtKB that provides more context and description of a phosphorylation event on a protein.\"\n Unique Values: \"442\"\n Name: \"eco_id\"\n Description: \"Evidence & Conclusion Ontology (ECO) identifier\"\n Unique Values: \"7\"", "downloadurl": "/ln2data/releases/data/v-2.2.1/reviewed/rat_proteoform_phosphorylation_sites_uniprotkb.csv" }