{ "bcoid": "GLY_000441", "title": "SARS-CoV2 Protein Sequence Info (UniProtKB)", "description": "The SARS coronavirus (SARS-CoV-2 or 2019-nCov) Protein Sequence Info (UniProtKB) dataset contains sarscov2 ...", "filename": "sarscov2_protein_sequenceinfo.csv", "filetype": "csv", "categories": { "species": "SARS coronavirus (SARS-CoV-2 or 2019-nCoV)", "molecule": "Protein", "tags": "All Protein Sequence Info", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "P0DTD2-1...", "P0DTD2-1..." ], [ "P0DTD1-1...", "P0DTD1-1..." ] ], "headers": [ "uniprotkb_ca...", "uniprotkb_is..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "uniprotkb_isoform_ac" }, { "type": "string", "label": "protein_existence" }, { "type": "string", "label": "sequence_version" }, { "type": "string", "label": "sequence_header" } ], [ "P0DTD2-1", "P0DTD2-1", "3", "1", "sp|P0DTD2-1|ORF9B_WCPV Isoform 1 of Protein 9b OS=SARS-CoV-2 OX=2697049 GN= PE=3 SV=1 CANONICAL=P0DTD2-1" ], [ "P0DTD1-1", "P0DTD1-1", "1", "1", "sp|P0DTD1-1|R1AB_WCPV Isoform 1 of Replicase polyprotein 1ab OS=SARS-CoV-2 OX=2697049 GN=rep PE=1 SV=1 CANONICAL=P0DTD1-1" ], [ "A0A663DJA2-1", "A0A663DJA2-1", "2", "1", "tr|A0A663DJA2-1|A0A663DJA2_9BETC Isoform 1 of ORF10 protein OS=SARS-CoV-2 OX=2697049 GN=ORF10 PE=2 SV=1 CANONICAL=A0A663DJA2-1" ], [ "P0DTD3-1", "P0DTD3-1", "3", "1", "sp|P0DTD3-1|Y14_WCPV Isoform 1 of Uncharacterized protein 14 OS=SARS-CoV-2 OX=2697049 GN= PE=3 SV=1 CANONICAL=P0DTD3-1" ], [ "P0DTC7-1", "P0DTC7-1", "3", "1", "sp|P0DTC7-1|NS7A_WCPV Isoform 1 of Protein 7a OS=SARS-CoV-2 OX=2697049 GN= PE=3 SV=1 CANONICAL=P0DTC7-1" ], [ "P0DTC6-1", "P0DTC6-1", "3", "1", "sp|P0DTC6-1|NS6_WCPV Isoform 1 of Non-structural protein 6 OS=SARS-CoV-2 OX=2697049 GN= PE=3 SV=1 CANONICAL=P0DTC6-1" ], [ "P0DTC5-1", "P0DTC5-1", "3", "1", "sp|P0DTC5-1|VME1_WCPV Isoform 1 of Membrane protein OS=SARS-CoV-2 OX=2697049 GN= PE=3 SV=1 CANONICAL=P0DTC5-1" ], [ "P0DTC4-1", "P0DTC4-1", "3", "1", "sp|P0DTC4-1|VEMP_WCPV Isoform 1 of Envelope small membrane protein OS=SARS-CoV-2 OX=2697049 GN=E PE=3 SV=1 CANONICAL=P0DTC4-1" ], [ "P0DTC3-1", "P0DTC3-1", "3", "1", "sp|P0DTC3-1|AP3A_WCPV Isoform 1 of Protein 3a OS=SARS-CoV-2 OX=2697049 GN= PE=3 SV=1 CANONICAL=P0DTC3-1" ], [ "P0DTC2-1", "P0DTC2-1", "3", "1", "sp|P0DTC2-1|SPIKE_WCPV Isoform 1 of Spike glycoprotein OS=SARS-CoV-2 OX=2697049 GN=S PE=3 SV=1 CANONICAL=P0DTC2-1" ], [ "P0DTC1-1", "P0DTC1-1", "3", "1", "sp|P0DTC1-1|R1A_WCPV Isoform 1 of Replicase polyprotein 1a OS=SARS-CoV-2 OX=2697049 GN= PE=3 SV=1 CANONICAL=P0DTC1-1" ], [ "P0DTD8-1", "P0DTD8-1", "3", "1", "sp|P0DTD8-1|NS7B_WCPV Isoform 1 of Protein non-structural 7b OS=SARS-CoV-2 OX=2697049 GN= PE=3 SV=1 CANONICAL=P0DTD8-1" ], [ "P0DTC9-1", "P0DTC9-1", "3", "1", "sp|P0DTC9-1|NCAP_WCPV Isoform 1 of Nucleoprotein OS=SARS-CoV-2 OX=2697049 GN=N PE=3 SV=1 CANONICAL=P0DTC9-1" ], [ "P0DTC8-1", "P0DTC8-1", "3", "1", "sp|P0DTC8-1|NS8_WCPV Isoform 1 of Non-structural protein 8 OS=SARS-CoV-2 OX=2697049 GN= PE=3 SV=1 CANONICAL=P0DTC8-1" ] ] }, "readme": "Name\n - SARS-CoV2 Protein Sequence Info (UniProtKB)\n\nVersion\n - 1.5.18\n\nCreated on\n - 2020-04-03T11:46:41.584409\n\nModified on\n - 2020-04-10T12:28:34.953517\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Rahi Navelkar [rsn13@gwu.edu], Robel Kahsay [rykahsay@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 SARS coronavirus (SARS-CoV-2 or 2019-nCov) Protein Sequence Info (UniProtKB) dataset contains sarscov2 [taxid:2697049] UniProtKB protein fasta sequence information that includes sequence version and fasta header. The dataset is derived from 2020-01 UniProtKB release. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen\n\nDescription Domain\n Keywords\n - protein sequence info\n - fasta header\n - UniProtKB\n\n Pipeline Steps\n - Step-1: The script loads the UniProtKB sequence for all sarscov2 isoform accessions data from the triplestore containing triples from nt file and extracts it into a dataset in a fasta format\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: uniprot-proteome-sars-cov-2.nt\n URI: https://data.glygen.org/ln2data/releases/data/v-1.5.18/source/uniprot-proteome-sars-cov-2.nt\n Output Subdomain\n Name: sarscov2_protein_sequenceinfo.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.5.18/reviewed/sarscov2_protein_sequenceinfo.csv\n Name: sarscov2_protein_sequenceinfo.stat.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.5.18/reviewed/sarscov2_protein_sarscov2_sequenceinfo.stat.csv\n\nFields\n Name: \"uniprotkb_isoform_ac\"\n Description: \"UniProtKB isoform that includes the canonical accession and other isoforms generated by alternative splicing\n Unique Values: \"14\"\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: \"14\"\n Name: \"sequence_header\"\n Description: \"The FASTA header for the UniProtKB protein FASTA sequences\"\n Unique Values: \"14\"\n Name: \"sequence_version\"\n Description: \"The version of the protein fasta sequence for a given accession in UniProtKB\"\n Unique Values: \"1\"\n Name: \"protein_existence\"\n Description: \"NA\"\n Unique Values: \"3\"", "downloadurl": "/ln2data/releases/data/v-1.5.18/reviewed/sarscov2_protein_sequenceinfo.csv" }