{ "bcoid": "GLY_000231", "title": "Rat Phosphoryation Sites (UniProtKB)", "description": "The Rat Phosphoryation 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": [ [ "A0A0G2K2P5-1...", "Tjp1..." ], [ "A1L1J6-1...", "Znf652..." ] ], "headers": [ "uniprotkb_ca...", "gene_symbol..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "gene_symbol" }, { "type": "string", "label": "phosphorylated_residue" }, { "type": "string", "label": "amino_acid" }, { "type": "string", "label": "phosphorylation_site_uniprotkb" }, { "type": "string", "label": "protein_kinase" }, { "type": "string", "label": "data_source" }, { "type": "string", "label": "evidence" }, { "type": "string", "label": "eco_id" } ], [ "A0A0G2K2P5-1", "Tjp1", "Phosphoserine", "Ser", "1365", "", "UniProtKB", "Q07157", "ECO_0000250" ], [ "A1L1J6-1", "Znf652", "Phosphoserine", "Ser", "100", "", "PubMed", "22673903", "ECO_0000244" ], [ "B0BN85-1", "Sugt1", "Phosphothreonine", "Thr", "255", "", "UniProtKB", "Q9Y2Z0", "ECO_0000250" ], [ "B0K035-1", "Mtfr2", "Phosphoserine", "Ser", "136", "", "UniProtKB", "Q6P444", "ECO_0000250" ], [ "B2GUZ2-1", "Ska3", "Phosphoserine", "Ser", "34", "", "UniProtKB", "Q8IX90", "ECO_0000250" ], [ "D3ZD05-1", "Kank2", "Phosphoserine", "Ser", "358", "", "UniProtKB", "Q63ZY3", "ECO_0000250" ], [ "D3ZTQ1-1", "Sfswap", "Phosphoserine", "Ser", "903", "", "PubMed", "22673903", "ECO_0000244" ], [ "D3ZZW6-1", "Hils1", "Phosphoserine", "Ser", "62", "", "PubMed", "22673903", "ECO_0000244" ], [ "D4A8G9-1", "Zfyve26", "Phosphoserine", "Ser", "612", "", "PubMed", "22673903", "ECO_0000244" ], [ "D4A8X0-1", "Zbtb4", "Phosphoserine", "Ser", "367", "", "UniProtKB", "Q9P1Z0", "ECO_0000250" ], [ "G3V6S8-1", "Srsf6", "Phosphoserine", "Ser", "303", "", "PubMed", "22673903", "ECO_0000244" ], [ "G3V893-1", "Znf335", "Phosphoserine", "Ser", "1006", "", "UniProtKB", "Q9H4Z2", "ECO_0000250" ], [ "G3V8T1-1", "Mphosph8", "Phosphoserine", "Ser", "51", "", "UniProtKB", "Q99549", "ECO_0000250" ], [ "O08815-1", "Slk", "Phosphoserine", "Ser", "545", "", "UniProtKB", "O54988", "ECO_0000250" ], [ "O08876-1", "Klf10", "Phosphoserine", "Ser", "249", "", "UniProtKB", "Q13118", "ECO_0000250" ], [ "O35314-1", "Chgb", "Phosphoserine", "Ser", "372", "", "UniProtKB", "P05060", "ECO_0000250" ], [ "O35412-1", "Sipa1l1", "Phosphoserine", "Ser", "1384", "", "UniProtKB", "O43166", "ECO_0000250" ], [ "O35876-1", "Smn1", "Phosphoserine", "Ser", "26", "", "PubMed", "22673903", "ECO_0000244" ], [ "O35986-1", "Zranb2", "Phosphoserine", "Ser", "188", "", "PubMed", "22673903", "ECO_0000244" ], [ "O70441-1", "Syn3", "Phosphoserine;", "Ser", "9", "", "UniProtKB", "Q8JZP2", "ECO_0000250" ], [ "O70441-1", "Syn3", "Phosphoserine;", "Ser", "9", "", "UniProtKB", "Q8JZP2", "ECO_0000250" ], [ "O70441-1", "Syn3", "Phosphoserine;", "Ser", "9", "PKA", "UniProtKB", "Q8JZP2", "ECO_0000250" ], [ "O70441-1", "Syn3", "Phosphoserine;", "Ser", "9", "CaMK1", "UniProtKB", "Q8JZP2", "ECO_0000250" ], [ "O70608-1", "Sycp2", "Phosphoserine", "Ser", "651", "", "PubMed", "22673903", "ECO_0000244" ], [ "O88563-1", "Abcc3", "Phosphoserine", "Ser", "902", "", "PubMed", "22673903", "ECO_0000244" ], [ "P01244-1", "Gh1", "Phosphoserine", "Ser", "131", "", "UniProtKB", "P01241", "ECO_0000250" ], [ "P02634-1", "S100g", "Phosphoserine", "Ser", "47", "", "PubMed", "22673903", "ECO_0000244" ], [ "P06883-1", "Gcg", "Phosphoserine", "Ser", "150", "", "UniProtKB", "P55095", "ECO_0000250" ], [ "P08699-1", "Lgals3", "Phosphoserine;", "Ser", "6", "", "UniProtKB", "P38486", "ECO_0000250" ], [ "P08699-1", "Lgals3", "Phosphoserine;", "Ser", "6", "", "UniProtKB", "P38486", "ECO_0000250" ], [ "P08699-1", "Lgals3", "Phosphoserine;", "Ser", "6", "CK1", "UniProtKB", "P38486", "ECO_0000250" ], [ "P0DJJ3-1", "Sgip1", "Phosphoserine", "Ser", "107", "", "PubMed", "22673903", "ECO_0000244" ], [ "P12928-1", "Pklr", "Phosphoserine", "Ser", "292", "", "UniProtKB", "P30613", "ECO_0000250" ], [ "P13839-1", "Ibsp", "Phosphoserine", "Ser", "31", "", "UniProtKB", "Q28862", "ECO_0000250" ], [ "P15389-1", "Scn5a", "Phosphothreonine", "Thr", "39", "", "UniProtKB", "Q14524", "ECO_0000250" ], [ "P17764-1", "Acat1", "Phosphoserine", "Ser", "204", "", "UniProtKB", "Q8QZT1", "ECO_0000250" ], [ "P19332-1", "Mapt", "Phosphoserine", "Ser", "525", "", "PubMed", "22673903", "ECO_0000244" ], [ "P28480-1", "Tcp1", "Phosphotyrosine", "Tyr", "181", "", "UniProtKB", "P17987", "ECO_0000250" ], [ "P28570-1", "Slc6a8", "Phosphothreonine", "Thr", "617", "", "UniProtKB", "P48029", "ECO_0000250" ], [ "P28573-1", "Slc6a7", "Phosphoserine", "Ser", "573", "", "PubMed", "16641100", "ECO_0000244" ], [ "P33671-1", "Sdc3", "Phosphotyrosine", "Tyr", "431", "", "UniProtKB", "O75056", "ECO_0000250" ], [ "P37285-1", "Klc1", "Phosphoserine", "Ser", "162", "", "PubMed", "22673903", "ECO_0000244" ], [ "P38438-1", "Tgfbr2", "Phosphoserine", "Ser", "548", "", "PubMed", "22673903", "ECO_0000244" ], [ "P47868-1", "Scg3", "Phosphoserine", "Ser", "40", "", "PubMed", "22673903", "ECO_0000244" ], [ "P48965-1", "Cdc25a", "Phosphoserine;", "Ser", "88", "", "UniProtKB", "P30304", "ECO_0000250" ], [ "P48965-1", "Cdc25a", "Phosphoserine;", "Ser", "88", "", "UniProtKB", "P30304", "ECO_0000250" ], [ "P48965-1", "Cdc25a", "Phosphoserine;", "Ser", "88", "NEK11", "UniProtKB", "P30304", "ECO_0000250" ], [ "P50411-1", "Ppp1r2", "Phosphoserine", "Ser", "87", "", "UniProtKB", "P41236", "ECO_0000250" ], [ "P52632-1", "Stat5b", "Phosphoserine", "Ser", "128", "", "PubMed", "22673903", "ECO_0000244" ], [ "P54900-1", "Scn2b", "Phosphothreonine", "Thr", "204", "", "PubMed", "22673903", "ECO_0000244" ], [ "P54921-1", "Napa", "Phosphoserine", "Ser", "195", "", "UniProtKB", "P54920", "ECO_0000250" ], [ "P55016-1", "Slc12a1", "Phosphothreonine", "Thr", "96", "", "UniProtKB", "P55014", "ECO_0000250" ], [ "P56603-1", "Scamp1", "Phosphoserine", "Ser", "2", "", "PubMed", "22673903", "ECO_0000244" ], [ "P60531-1", "Tsks", "Phosphoserine", "Ser", "224", "", "PubMed", "22673903", "ECO_0000244" ], [ "P97588-1", "Smad1", "Phosphothreonine;", "Thr", "325", "", "UniProtKB", "Q15797", "ECO_0000250" ], [ "P97588-1", "Smad1", "Phosphothreonine;", "Thr", "325", "", "UniProtKB", "Q15797", "ECO_0000250" ], [ "P97588-1", "Smad1", "Phosphothreonine;", "Thr", "325", "MINK1", "UniProtKB", "Q15797", "ECO_0000250" ], [ "P97588-1", "Smad1", "Phosphothreonine;", "Thr", "325", "TNIK", "UniProtKB", "Q15797", "ECO_0000250" ], [ "P97588-1", "Smad1", "Phosphothreonine;", "Thr", "325", "MAP4K4", "UniProtKB", "Q15797", "ECO_0000250" ], [ "Q07205-1", "Eif5", "Phosphoserine", "Ser", "388", "", "PubMed", "11861906", "ECO_0000269" ], [ "Q07205-1", "Eif5", "Phosphoserine", "Ser", "388", "", "PubMed", "22673903", "ECO_0000244" ], [ "Q09167-1", "Srsf5", "Phosphoserine", "Ser", "224", "", "UniProtKB", "Q13243", "ECO_0000250" ], [ "Q2EJA0-1", "Yap1", "Phosphothreonine", "Thr", "104", "", "PubMed", "22673903", "ECO_0000244" ], [ "Q2PS20-1", "Jph2", "Phosphoserine", "Ser", "479", "", "PubMed", "22673903", "ECO_0000244" ], [ "Q2THW7-1", "Zdhhc5", "Phosphoserine", "Ser", "398", "", "UniProtKB", "Q9C0B5", "ECO_0000250" ], [ "Q3MHT4-1", "Tut1", "Phosphoserine", "Ser", "686", "", "UniProtKB", "Q8R3F9", "ECO_0000250" ], [ "Q498E2-1", "Tdrp", "Phosphoserine", "Ser", "7", "", "PubMed", "16641100", "ECO_0000244" ], [ "Q4L208-1", "Slc9a8", "Phosphothreonine", "Thr", "504", "", "UniProtKB", "Q8R4D1", "ECO_0000250" ], [ "Q501L3-1", "Msantd4", "Phosphothreonine", "Thr", "188", "", "UniProtKB", "Q8NCY6", "ECO_0000250" ], [ "Q53UA7-1", "Taok3", "Phosphoserine", "Ser", "324", "", "PubMed", "22673903", "ECO_0000244" ], [ "Q562A2-1", "Zfr", "Phosphoserine", "Ser", "1053", "", "PubMed", "16641100", "ECO_0000244" ], [ "Q562A2-1", "Zfr", "Phosphoserine", "Ser", "1053", "", "PubMed", "22673903", "ECO_0000244" ], [ "Q5BJN8-1", "Sde2", "Phosphoserine", "Ser", "279", "", "UniProtKB", "Q6IQ49", "ECO_0000250" ], [ "Q5BK48-1", "Ttc5", "Phosphoserine", "Ser", "221", "", "UniProtKB", "Q99LG4", "ECO_0000250" ], [ "Q5CD77-1", "Tbc1d14", "Phosphoserine", "Ser", "296", "", "UniProtKB", "Q9P2M4", "ECO_0000250" ], [ "Q5EAN7-1", "Terf2ip", "Phosphoserine", "Ser", "36", "", "UniProtKB", "Q9NYB0", "ECO_0000250" ], [ "Q5EB96-1", "Sept1", "Phosphoserine", "Ser", "206", "", "PubMed", "22673903", "ECO_0000244" ], [ "Q5FVN1-1", "Stbd1", "Phosphoserine", "Ser", "192", "", "UniProtKB", "O95210", "ECO_0000250" ], [ "Q5I0E8-1", "Kif22", "Phosphoserine", "Ser", "444", "", "UniProtKB", "Q14807", "ECO_0000250" ], [ "Q5JCS6-1", "Sipa1l2", "Phosphoserine", "Ser", "1245", "", "PubMed", "22673903", "ECO_0000244" ], [ "Q5M7W1-1", "Txnip", "Phosphoserine", "Ser", "361", "", "UniProtKB", "Q9H3M7", "ECO_0000250" ], [ "Q5M869-1", "Sit1", "Phosphoserine", "Ser", "84", "", "UniProtKB", "Q9Y3P8", "ECO_0000250" ], [ "Q5M9G6-1", "Snip1", "Phosphoserine", "Ser", "33", "", "UniProtKB", "Q8TAD8", "ECO_0000250" ], [ "Q5PQM2-1", "Klc4", "Phosphoserine", "Ser", "174", "", "UniProtKB", "Q9DBS5", "ECO_0000250" ] ] }, "readme": "Name\n - Rat Phosphoryation Sites (UniProtKB)\n\nVersion\n - 1.4.5\n\nCreated on\n - 2019-09-06T14:06:38.959200\n\nModified on\n - \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]\n\nAuthors\n - Maria Martin [martin@ebi.ac.uk], Preethi Vasudev [pvasudev@ebi.ac.uk]\n\nChecksum\n - \n\nUsability Domain\n - The Rat Phosphoryation Sites (UniProtKB) dataset contains rat [taxid:10116] UniProtKB canonical accessions with information on reported and predicted phosphoryation sites with evidence in UniProtKB database. The dataset is derived from 2019-05 UniProt release. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen\n\nDescription Domain\n Keywords\n - phosphoryation Sites\n - ptm processing\n - UniProtKB\n\n Pipeline Steps\n - Step-1: The script loads the phosphorylation information from the triplestore conatining triples from the nt file and extracts as a csv dataset\n\nExecution Domain\n Scripts - https://github.com/GW-HIVE/glygen-backend-integration/blob/master/pipeline/integrator/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-10116-rattus-norvegicus-2019-05.nt\n URI: https://data.glygen.org/ln2wwwdata/source/uniprot-proteome-10116-rattus-norvegicus-2019-05.nt\n Name: rat_protein_idmapping.csv\n URI: https://data.glygen.org/ln2wwwdata/reviewed/rat_protein_idmapping.csv\n Output Subdomain\n Name: rat_proteoform_phosphorylation_sites_uniprotkb.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/rat_proteoform_phosphorylation_sites_uniprotkb.csv\n Name: rat_proteoform_phosphorylation_sites_uniprotkb.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/rat_proteoform_phosphorylation_sites_uniprotkb.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"Accession assigned to the protein isoform chosen to be the canonical sequence to which all positional annotation refers in UniProtKB database\"\n Unique Values: \"3855\"\n Name: \"data_source\"\n Description: \"\"\n Unique Values: \"6\"\n Name: \"phosphorylation_site_uniprotkb\"\n Description: \"\"\n Unique Values: \"1981\"\n Name: \"phosphorylated_residue\"\n Description: \"\"\n Unique Values: \"7\"\n Name: \"amino_acid\"\n Description: \"Three letter abbreviation code of the amino acid\"\n Unique Values: \"4\"\n Name: \"protein_kinase\"\n Description: \"\"\n Unique Values: \"249\"\n Name: \"evidence\"\n Description: \"NCBI PubMed Id (PMID) as evidence for the entry/annotation\"\n Unique Values: \"4351\"\n Name: \"gene_symbol\"\n Description: \"Official gene name/symbol assigned to the gene. Human gene name/symbol are approved by the HUGO Gene Nomenclature Committee (HGNC) and mouse gene name are approved by the Mouse Genome Informatics (MGI)\n Unique Values: \"3814\"\n Name: \"eco_id\"\n Description: \"\"\n Unique Values: \"7\"", "downloadurl": "/ln2data/releases/data/v-1.4.5/reviewed/rat_proteoform_phosphorylation_sites_uniprotkb.csv" }