{ "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", "tags": "Phosphorylation Sites", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "Q68FV2-1...", "2..." ], [ "Q794F9-1...", "2..." ] ], "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" } ], [ "Q68FV2-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "Q68FV2", "protein_xref_uniprotkb", "Q68FV2", "Phosphoserine", "Phosphoserine", "ECO_0000250" ], [ "Q794F9-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "Q794F9", "protein_xref_uniprotkb", "Q794F9", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q794F9-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "Q794F9", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P41350-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "P41350", "protein_xref_uniprotkb", "P41350", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P41350-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "P41350", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P50753-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "P50753", "protein_xref_uniprotkb", "P50753", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P50753-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "P50753", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P62329-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "P62329", "protein_xref_uniprotkb", "P62329", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P62329-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "P62329", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P54311-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "P54311", "protein_xref_uniprotkb", "P54311", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P54311-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "P54311", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P47727-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "P47727", "protein_xref_uniprotkb", "P47727", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P47727-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "P47727", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "O35921-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "O35921", "protein_xref_uniprotkb", "O35921", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "O35921-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "O35921", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P62997-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "P62997", "protein_xref_uniprotkb", "P62997", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P62997-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "P62997", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q9EPY0-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "Q9EPY0", "protein_xref_uniprotkb", "Q9EPY0", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q9EPY0-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "Q9EPY0", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q7TNZ6-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "Q7TNZ6", "protein_xref_uniprotkb", "Q7TNZ6", "Phosphoserine", "Phosphoserine", "ECO_0000250" ], [ "P97876-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "P97876", "protein_xref_uniprotkb", "P97876", "Phosphoserine", "Phosphoserine", "ECO_0000250" ], [ "Q9ES67-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "Q9ES67", "protein_xref_uniprotkb", "Q9ES67", "Phosphoserine", "Phosphoserine", "ECO_0000250" ], [ "O89046-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "O89046", "protein_xref_uniprotkb", "O89046", "Phosphoserine", "Phosphoserine", "ECO_0000250" ], [ "P48317-1", "2", "Thr", "", "", "protein_xref_uniprotkb", "P48317", "protein_xref_uniprotkb", "P48317", "Phosphothreonine", "Phosphothreonine", "ECO_0000250" ], [ "Q7TNB2-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "Q7TNB2", "protein_xref_uniprotkb", "Q7TNB2", "Phosphoserine", "Phosphoserine; by CK2", "" ], [ "Q9WUL0-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "Q9WUL0", "protein_xref_uniprotkb", "Q9WUL0", "Phosphoserine", "Phosphoserine", "ECO_0000250" ], [ "P63219-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "P63219", "protein_xref_uniprotkb", "P63219", "Phosphoserine", "Phosphoserine", "ECO_0000250" ], [ "O35353-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "O35353", "protein_xref_uniprotkb", "O35353", "Phosphoserine", "Phosphoserine", "ECO_0000250" ], [ "P09739-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "P09739", "protein_xref_uniprotkb", "P09739", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P09739-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "P09739", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q712U5-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "Q712U5", "protein_xref_uniprotkb", "Q712U5", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q712U5-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "Q712U5", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P27158-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "P27158", "protein_xref_uniprotkb", "P27158", "Phosphoserine", "Phosphoserine", "ECO_0000250" ], [ "Q5I0H3-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "Q5I0H3", "protein_xref_uniprotkb", "Q5I0H3", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q5I0H3-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "Q5I0H3", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P02625-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "P02625", "protein_xref_uniprotkb", "P02625", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P02625-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "P02625", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q9Z2P5-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "Q9Z2P5", "protein_xref_uniprotkb", "Q9Z2P5", "Phosphoserine", "Phosphoserine", "ECO_0000250" ], [ "P0CC09-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "P0CC09", "protein_xref_uniprotkb", "P0CC09", "Phosphoserine", "Phosphoserine; by RPS6KA5", "" ], [ "P38918-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "P38918", "protein_xref_uniprotkb", "P38918", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P38918-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "P38918", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q5XI32-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "Q5XI32", "protein_xref_uniprotkb", "Q5XI32", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q5XI32-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "Q5XI32", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q5M9H0-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "Q5M9H0", "protein_xref_uniprotkb", "Q5M9H0", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q5M9H0-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "Q5M9H0", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q66H71-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "Q66H71", "protein_xref_uniprotkb", "Q66H71", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q66H71-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "Q66H71", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q9R1T1-1", "2", "Thr", "", "", "protein_xref_uniprotkb", "Q9R1T1", "protein_xref_uniprotkb", "Q9R1T1", "Phosphothreonine", "Phosphothreonine; by VRK1 and VRK2", "" ], [ "B5DF91-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "B5DF91", "protein_xref_uniprotkb", "B5DF91", "Phosphoserine", "Phosphoserine", "ECO_0000250" ], [ "P16617-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "P16617", "protein_xref_uniprotkb", "P16617", "Phosphoserine", "Phosphoserine", "ECO_0000250" ], [ "O35095-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "O35095", "protein_xref_uniprotkb", "O35095", "Phosphoserine", "Phosphoserine", "ECO_0000250" ], [ "Q91VC0-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "Q91VC0", "protein_xref_uniprotkb", "Q91VC0", "Phosphoserine", "Phosphoserine", "ECO_0000250" ], [ "Q91ZN1-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "Q91ZN1", "protein_xref_uniprotkb", "Q91ZN1", "Phosphoserine", "Phosphoserine; by PKC", "" ], [ "Q6IG12-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "Q6IG12", "protein_xref_uniprotkb", "Q6IG12", "Phosphoserine", "Phosphoserine", "ECO_0000250" ], [ "Q9EQH1-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "Q9EQH1", "protein_xref_uniprotkb", "Q9EQH1", "Phosphoserine", "Phosphoserine", "ECO_0000250" ], [ "P62138-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "P62138", "protein_xref_uniprotkb", "P62138", "Phosphoserine", "Phosphoserine", "ECO_0000250" ], [ "P04256-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "P04256", "protein_xref_uniprotkb", "P04256", "Phosphoserine", "Phosphoserine", "ECO_0000250" ], [ "P16599-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "P16599", "protein_xref_uniprotkb", "P16599", "Phosphoserine", "Phosphoserine; by CK1", "" ], [ "P0C169-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "P0C169", "protein_xref_uniprotkb", "P0C169", "Phosphoserine", "Phosphoserine; by RPS6KA5", "" ], [ "P0C170-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "P0C170", "protein_xref_uniprotkb", "P0C170", "Phosphoserine", "Phosphoserine; by RPS6KA5", "" ], [ "Q4FZT6-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "Q4FZT6", "protein_xref_uniprotkb", "Q4FZT6", "Phosphoserine", "Phosphoserine; by RPS6KA5", "" ], [ "P23640-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "P23640", "protein_xref_uniprotkb", "P23640", "Phosphoserine", "Phosphoserine", "ECO_0000250" ], [ "P02262-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "P02262", "protein_xref_uniprotkb", "P02262", "Phosphoserine", "Phosphoserine; by RPS6KA5", "" ], [ "Q00728-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "Q00728", "protein_xref_uniprotkb", "Q00728", "Phosphoserine", "Phosphoserine; by RPS6KA5", "" ], [ "Q64598-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "Q64598", "protein_xref_uniprotkb", "Q64598", "Phosphoserine", "Phosphoserine; by RPS6KA5", "" ], [ "Q63635-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "Q63635", "protein_xref_uniprotkb", "Q63635", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q63635-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "Q63635", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q01714-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "Q01714", "protein_xref_uniprotkb", "Q01714", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q01714-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "Q01714", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q498C8-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "Q498C8", "protein_xref_uniprotkb", "Q498C8", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q498C8-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "Q498C8", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q9WUV6-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "Q9WUV6", "protein_xref_uniprotkb", "Q9WUV6", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q9WUV6-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "Q9WUV6", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P35213-1", "2", "Thr", "", "", "protein_xref_uniprotkb", "P35213", "protein_xref_uniprotkb", "P35213", "Phosphothreonine", "Phosphothreonine", "ECO_0000250" ], [ "D4A3K5-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "D4A3K5", "protein_xref_uniprotkb", "D4A3K5", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "D4A3K5-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "D4A3K5", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P18265-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "P18265", "protein_xref_uniprotkb", "P18265", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P18265-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "P18265", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P15865-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "P15865", "protein_xref_uniprotkb", "P15865", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P15865-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "P15865", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P70618-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "P70618", "protein_xref_uniprotkb", "P70618", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P70618-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "P70618", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q6P7Q1-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "Q6P7Q1", "protein_xref_uniprotkb", "Q6P7Q1", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q6P7Q1-1", "2", "Ser", "", "", "protein_xref_pubmed", "22673903", "protein_xref_uniprotkb", "Q6P7Q1", "Phosphoserine", "Phosphoserine", "ECO_0007744" ] ] }, "readme": "Name\n - Rat Phosphorylation Sites (UniProtKB)\n\nVersion\n - v-x.x.x\n\nCreated on\n - 2019-09-06T14:06:38.959200\n\nModified on\n - 2022-01-19T12:19:19.431770\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Rahi Navelkar [rsn13@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Xavier Holmes [xavierh@email.gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Amanda Bell [amandab2140@gwu.edu], Jonathon Keeney [keeneyjg@gwu.edu], Millicent Quartey [mquartey@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/2022_03/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-2.0.2/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-2.0.2/reviewed/rat_proteoform_phosphorylation_sites_uniprotkb.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"3958\"\n Name: \"phosphorylation_site_uniprotkb\"\n Description: \"Site on the protein sequence of the UniProtKB entry where phosphorylation is observed\"\n Unique Values: \"1998\"\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: \"4095\"\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: \"3968\"\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-2.0.2/reviewed/rat_proteoform_phosphorylation_sites_uniprotkb.csv" }