{ "bcoid": "GLY_000269", "title": "Mouse N-Glycosylation Sequon", "description": "The Mouse N-Glycosylation Sequon dataset contains N-glycosylation sequon or motif or consensus sequence ...", "filename": "mouse_protein_glycosylation_motifs.csv", "filetype": "csv", "categories": { "species": "Mus Musculus", "molecule": "Protein", "tags": "N-Glycosylation Sequon", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "Q8BH24-1...", "105..." ], [ "Q8BH27-1...", "36..." ] ], "headers": [ "uniprotkb_ca...", "start_pos..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "start_pos" }, { "type": "string", "label": "end_pos" }, { "type": "string", "label": "motif" } ], [ "Q8BH24-1", "105", "107", "NQS" ], [ "Q8BH27-1", "36", "38", "NVT" ], [ "Q8BH27-1", "179", "181", "NSS" ], [ "Q8BH27-1", "203", "205", "NCS" ], [ "Q8BH27-1", "216", "218", "NQT" ], [ "Q8BH27-1", "243", "245", "NHT" ], [ "Q8BH27-1", "265", "267", "NSS" ], [ "Q8BH27-1", "303", "305", "NRS" ], [ "Q8BH27-1", "357", "359", "NCT" ], [ "Q8BH27-1", "426", "428", "NTT" ], [ "Q8BH27-1", "466", "468", "NAS" ], [ "Q8BH27-1", "479", "481", "NST" ], [ "Q8BH27-1", "498", "500", "NST" ], [ "Q8BH27-1", "557", "559", "NIS" ], [ "Q8BH26-1", "63", "65", "NET" ], [ "Q8VF69-1", "9", "11", "NVS" ], [ "Q8VF69-1", "46", "48", "NSS" ], [ "Q8VF69-1", "69", "71", "NLS" ], [ "Q8VF69-1", "269", "271", "NNT" ], [ "Q9JHR7-1", "732", "734", "NIT" ], [ "Q9JHR7-1", "979", "981", "NLS" ], [ "Q9JHR7-1", "994", "996", "NMT" ], [ "Q8VF63-1", "10", "12", "NDS" ], [ "Q8VF63-1", "70", "72", "NLS" ], [ "Q8VF66-1", "8", "10", "NHT" ], [ "Q8VF66-1", "45", "47", "NLS" ], [ "Q8VF66-1", "158", "160", "NAS" ], [ "Q8VF65-1", "8", "10", "NHT" ], [ "Q8VF65-1", "41", "43", "NVS" ], [ "Q8VF65-1", "45", "47", "NLS" ], [ "Q8VF65-1", "158", "160", "NAS" ], [ "Q8VF64-1", "5", "7", "NSS" ], [ "Q8VF64-1", "65", "67", "NLS" ], [ "B2RXV4-1", "260", "262", "NST" ], [ "B2RXV4-1", "270", "272", "NNT" ], [ "E9Q3P4-1", "249", "251", "NKS" ], [ "E9Q3P4-1", "330", "332", "NKT" ], [ "E9Q3P4-1", "523", "525", "NTS" ], [ "E9Q3P4-1", "561", "563", "NCS" ], [ "E9Q3P4-1", "666", "668", "NFT" ], [ "E9Q3P4-1", "872", "874", "NLS" ], [ "E9Q3P4-1", "1154", "1156", "NLT" ], [ "E9Q3P4-1", "1326", "1328", "NDS" ], [ "E9Q3P4-1", "1378", "1380", "NHS" ], [ "E9Q3P4-1", "1516", "1518", "NAS" ], [ "E9Q3P4-1", "1885", "1887", "NAT" ], [ "E9Q3P4-1", "1969", "1971", "NVS" ], [ "E9Q3P4-1", "2042", "2044", "NDS" ], [ "E9Q3P4-1", "2412", "2414", "NSS" ], [ "E9Q3P4-1", "2448", "2450", "NET" ], [ "E9Q3P4-1", "2557", "2559", "NVT" ], [ "E9Q3P4-1", "2573", "2575", "NNT" ], [ "E9Q3P4-1", "2787", "2789", "NSS" ], [ "E9Q3P4-1", "2796", "2798", "NTS" ], [ "E9Q3P4-1", "2962", "2964", "NST" ], [ "A0A087WRQ3-1", "39", "41", "NCT" ], [ "Q07968-1", "163", "165", "NYS" ], [ "Q07968-1", "492", "494", "NLS" ], [ "Q07968-1", "546", "548", "NGS" ], [ "A5H0M4-1", "113", "115", "NHT" ], [ "A5H0M4-1", "300", "302", "NDS" ], [ "Q9CXG3-1", "99", "101", "NGS" ], [ "Q9CXG3-1", "140", "142", "NET" ], [ "Q9CXG3-1", "157", "159", "NHT" ], [ "Q9CXG3-1", "440", "442", "NRS" ], [ "A0A1B0GST0-1", "13", "15", "NFT" ], [ "Q3UU21-1", "326", "328", "NQS" ], [ "Q3UU21-1", "351", "353", "NDS" ], [ "Q3UU21-1", "429", "431", "NSS" ], [ "Q3UU21-1", "508", "510", "NST" ], [ "Q3UU21-1", "543", "545", "NDS" ], [ "Q3UU21-1", "550", "552", "NDS" ], [ "Q9QYH9-1", "100", "102", "NAS" ], [ "Q9QYH9-1", "191", "193", "NSS" ], [ "P52479-1", "135", "137", "NDS" ], [ "P52479-1", "421", "423", "NAT" ], [ "P52479-1", "581", "583", "NKT" ], [ "Q9QYH6-1", "53", "55", "NAS" ], [ "Q9QYH6-1", "87", "89", "NAT" ], [ "Q9QYH6-1", "108", "110", "NQS" ], [ "Q9QYH6-1", "118", "120", "NGT" ], [ "Q9QYH6-1", "151", "153", "NST" ], [ "Q9QYH6-1", "184", "186", "NDT" ], [ "Q9QYH6-1", "255", "257", "NNS" ] ] }, "readme": "Name\n - Mouse N-Glycosylation Sequon\n\nVersion\n - 1.5.12\n\nCreated on\n - 2019-09-06T14:06:38.995531\n\nModified on\n - 2019-12-01T15:11:21.774987\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 Mouse N-Glycosylation Sequon dataset contains N-glycosylation sequon or motif or consensus sequence for mouse [taxid:10090] UniProtKB canonical sequences identified by the script. The script identifies the N-glycosylation sequon pattern - Asn-X-Ser/Thr , where X is any amino acid except proline (Pro) for UniProtKb accessions. If you use this dataset please provide proper attribution to GlyGen. The dataset is derived form 2019-09 UniprotKB release.\n\nDescription Domain\n Keywords\n - n-glycosylation sequon\n - NXS/T\n - n-glycosylation motif\n - n-glycosylation consensus sequence\n\n Pipeline Steps\n - Step-1: The script uses the PS Scan tool (accession- PS00001) from ProSite to extracts the N-glycosylation pattern/sequon/motif N-{P}-[ST]-{P} where P is not a proline from the UniProtKB canonical sequences. More info - https://prosite.expasy.org/PDOC00001, https://prosite.expasy.org/PS00001 and extracts as a csv.\n\nExecution Domain\n Scripts - https://github.com/GW-HIVE/glygen-backend-integration/blob/master/pipeline/integrator/make-protein-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: mouse_protein_canonicalsequences.fasta\n URI: https://data.glygen.org/ln2data/releases/data/v-1.5.12/reviewed/mouse_protein_canonicalsequences.fasta\n Output Subdomain\n Name: mouse_protein_glycosylation_motifs.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.5.12/reviewed/mouse_protein_glycosylation_motifs.csv\n Name: mouse_protein_glycosylation_motifs.stat.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.5.12/reviewed/mouse_protein_glycosylation_motifs.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: \"16919\"\n Name: \"end_pos\"\n Description: \"End position of the gene on the chromosome\"\n Unique Values: \"3822\"\n Name: \"motif\"\n Description: \"\"\n Unique Values: \"41\"\n Name: \"start_pos\"\n Description: \"Start position of the gene on the chromosome\"\n Unique Values: \"3822\"", "downloadurl": "/ln2data/releases/data/v-1.5.12/reviewed/mouse_protein_glycosylation_motifs.csv" }