{ "bcoid": "GLY_000905", "title": "Pig N-Glycosylation Sequon", "description": "The Pig N-Glycosylation Sequon dataset contains N-glycosylation sequon or motif or consensus sequence ...", "filename": "pig_protein_glycosylation_motifs.csv", "filetype": "csv", "categories": { "species": [ "Sus scrofa" ], "molecule": [ "Protein" ], "tag": [ "N-Glycosylation Sequon" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "A0A8W4F999-1...", "15..." ], [ "A0A8W4F999-1...", "102..." ] ], "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" } ], [ "A0A8W4F999-1", "15", "17", "NFS" ], [ "A0A8W4F999-1", "102", "104", "NIS" ], [ "A0A4X1U3C8-1", "29", "31", "NCT" ], [ "A0A4X1U3C8-1", "53", "55", "NCS" ], [ "A0A4X1U3C8-1", "119", "121", "NET" ], [ "A0A4X1U3C8-1", "276", "278", "NNT" ], [ "F1RV90-1", "24", "26", "NES" ], [ "F1RV90-1", "252", "254", "NAS" ], [ "F1RV90-1", "384", "386", "NGT" ], [ "F1RV90-1", "449", "451", "NHS" ], [ "F1RV90-1", "455", "457", "NKS" ], [ "F1RV90-1", "494", "496", "NVS" ], [ "F1RV90-1", "542", "544", "NQS" ], [ "F1S708-1", "204", "206", "NCS" ], [ "F1S708-1", "1322", "1324", "NLT" ], [ "F1S708-1", "1341", "1343", "NES" ], [ "A0A8W4FMS3-1", "52", "54", "NLS" ], [ "A0A8W4FMS3-1", "107", "109", "NAS" ], [ "A0A8W4FMS3-1", "150", "152", "NLS" ], [ "A0A8W4FMS3-1", "620", "622", "NSS" ], [ "A0A8W4FMS3-1", "636", "638", "NSS" ], [ "A0A8W4FMS3-1", "646", "648", "NSS" ], [ "I3L6J1-1", "678", "680", "NST" ], [ "F1SBU6-1", "128", "130", "NAS" ], [ "F1SBU6-1", "231", "233", "NRS" ], [ "F1SBU6-1", "241", "243", "NGT" ], [ "F1SBU6-1", "294", "296", "NIT" ], [ "F1SBU6-1", "458", "460", "NIS" ], [ "F1SBU6-1", "473", "475", "NFT" ], [ "F1SBU6-1", "544", "546", "NYS" ], [ "F1SBU6-1", "636", "638", "NWT" ], [ "A0A8W4FPT9-1", "169", "171", "NSS" ], [ "A0A8W4FPT9-1", "757", "759", "NFS" ], [ "A0A8W4FPT9-1", "1029", "1031", "NCS" ], [ "A0A8W4FPT9-1", "1151", "1153", "NSS" ], [ "F1RY43-1", "105", "107", "NVS" ], [ "A0A287BN22-1", "97", "99", "NVT" ], [ "A0A287BN22-1", "129", "131", "NGS" ], [ "A0A287BN22-1", "137", "139", "NSS" ], [ "A0A287BN22-1", "141", "143", "NSS" ], [ "A0A287BN22-1", "212", "214", "NFT" ], [ "A0A287BN27-1", "49", "51", "NST" ], [ "A0A287BN27-1", "230", "232", "NVS" ], [ "A0A5G2R0S0-1", "368", "370", "NSS" ], [ "A0A5G2R0S0-1", "501", "503", "NLT" ], [ "A0A5G2R0S0-1", "675", "677", "NAS" ], [ "A0A286ZXT3-1", "313", "315", "NGT" ], [ "A0A286ZXT3-1", "406", "408", "NSS" ], [ "A0A286ZXT3-1", "851", "853", "NDT" ], [ "A0A286ZXT3-1", "1087", "1089", "NTT" ], [ "A0A286ZXT3-1", "1337", "1339", "NAT" ], [ "A0A286ZXT3-1", "1713", "1715", "NVS" ], [ "A0A286ZXT3-1", "2034", "2036", "NMT" ], [ "A0A286ZXT3-1", "2055", "2057", "NRS" ], [ "A0A5G2QDB0-1", "39", "41", "NFT" ], [ "A0A4X1VDU3-1", "99", "101", "NIT" ], [ "A0A287A5F7-1", "87", "89", "NFT" ], [ "F1RWM0-1", "7", "9", "NGS" ], [ "F1RWM0-1", "240", "242", "NTT" ], [ "F1RWM0-1", "289", "291", "NST" ], [ "A0A8D0PQ51-1", "21", "23", "NAS" ], [ "A0A8D0PQ51-1", "130", "132", "NES" ], [ "I3L942-1", "170", "172", "NYT" ], [ "I3L942-1", "361", "363", "NCT" ], [ "I3L942-1", "736", "738", "NKS" ], [ "I3L942-1", "741", "743", "NLS" ], [ "I3L942-1", "1297", "1299", "NGS" ], [ "D7PF45-1", "444", "446", "NVT" ], [ "D7PF45-1", "554", "556", "NGT" ], [ "A0A4X1U326-1", "33", "35", "NFS" ], [ "A0A4X1U326-1", "74", "76", "NMT" ], [ "A0A5G2Q7W2-1", "127", "129", "NGS" ], [ "A0A5G2Q7W2-1", "211", "213", "NVT" ], [ "A0A287AZX1-1", "99", "101", "NNS" ], [ "A0A287AZX1-1", "165", "167", "NIT" ], [ "A0A287AZX1-1", "181", "183", "NIT" ], [ "A0A287AZX1-1", "210", "212", "NGS" ], [ "A0A287BPN5-1", "198", "200", "NYS" ], [ "A0A287BAF3-1", "274", "276", "NCT" ], [ "F1SRD2-1", "583", "585", "NLT" ], [ "A0A287BT51-1", "846", "848", "NTS" ], [ "A0A287BT51-1", "1016", "1018", "NVT" ], [ "A0A287BT51-1", "1221", "1223", "NDS" ], [ "A0A287BT51-1", "1417", "1419", "NFS" ] ] }, "readme": "Name\n - Pig N-Glycosylation Sequon\n\nVersion\n - v-2.4.1\n\nCreated on\n - \n\nModified on\n - 2024-02-27T20:48:03\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], 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 Pig N-Glycosylation Sequon dataset contains N-glycosylation sequon or motif or consensus sequence for pig [taxid:9823] 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. 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/glygener/glygen-backend-integration/blob/master/dataset-maker/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: pig_protein_canonicalsequences.fasta\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/pig_protein_canonicalsequences.fasta\n Name: prosite.dat\n URI: https:/data.glygen.org/ln2downloads/prosite/prosite.dat\n Output Subdomain\n Name: pig_protein_glycosylation_motifs.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/pig_protein_glycosylation_motifs.csv\n Name: pig_protein_glycosylation_motifs.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/pig_protein_glycosylation_motifs.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"16876\"\n Name: \"start_pos\"\n Description: \"Start position of the gene on the chromosome\"\n Unique Values: \"3255\"\n Name: \"end_pos\"\n Description: \"End position of the gene on the chromosome\"\n Unique Values: \"3255\"\n Name: \"motif\"\n Description: \"Glycan motif\"\n Unique Values: \"38\"", "downloadurl": "/ln2data/releases/data/v-2.4.1/reviewed/pig_protein_glycosylation_motifs.csv" }