{ "bcoid": "GLY_000136", "title": "Mouse Transcript Locus (Ensembl Transcript coordinates)", "description": "Th Mouse Transcript Locus (Ensembl Transcript coordinates)contains UniProtKB mouse [taxid:10090] canonical ...", "filename": "mouse_protein_transcriptlocus.csv", "filetype": "csv", "categories": { "species": "Mus musculus", "molecule": "Protein", "tags": "Transcript Coordinates", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "Q8BH24-1...", "Q8BH24-1..." ], [ "Q8BH27-1...", "F8WHT8-1..." ] ], "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": "transcript_id" }, { "type": "string", "label": "peptide_id" }, { "type": "string", "label": "chromosome_id" }, { "type": "string", "label": "start_pos" }, { "type": "string", "label": "end_pos" }, { "type": "string", "label": "strand" } ], [ "Q8BH24-1", "Q8BH24-1", "ENSMUST00000089027", "ENSMUSP00000086422", "2", "153161557", "153208753", "0" ], [ "Q8BH27-1", "F8WHT8-1", "ENSMUST00000037881", "ENSMUSP00000040801", "4", "70534822", "70463419", "1" ], [ "Q8BH27-1", "Q8BH27-1", "ENSMUST00000107359", "ENSMUSP00000102982", "4", "70534822", "70433083", "1" ], [ "Q8BH26-1", "Q8BH26-1", "ENSMUST00000057416", "ENSMUSP00000054611", "12", "102744087", "102745008", "0" ], [ "Q922G0-1", "F6R114-1", "ENSMUST00000124250", "ENSMUSP00000119696", "9", "97100220", "97092586", "1" ], [ "Q9DAV8-1", "J3JS25-1", "ENSMUST00000095926", "ENSMUSP00000093616", "13", "27582110", "27575426", "1" ], [ "O35453-1", "F7C9T6-1", "ENSMUST00000171225", "ENSMUSP00000130966", "7", "31099285", "31099106", "1" ], [ "Q8VF69-1", "Q8VF69-1", "ENSMUST00000215626", "ENSMUSP00000149991", "11", "59590087", "59589131", "1" ], [ "Q9JHR7-1", "F6RPJ9-1", "ENSMUST00000131070", "ENSMUSP00000121358", "19", "37330613", "37270744", "1" ], [ "Q8VF63-1", "Q7TRE2-1", "ENSMUST00000212489", "ENSMUSP00000148535", "9", "37992509", "37993435", "0" ], [ "Q8VF63-1", "Q8VF63-1", "ENSMUST00000074611", "ENSMUSP00000074193", "9", "37992494", "37993435", "0" ], [ "Q61476-1", "E9Q731-1", "ENSMUST00000119432", "ENSMUSP00000113352", "1", "130422958", "130388611", "1" ], [ "Q9Z2D8-1", "F6WZH1-1", "ENSMUST00000142997", "ENSMUSP00000120675", "10", "80395170", "80393102", "1" ], [ "Q8VF66-1", "Q8VF66-1", "ENSMUST00000075704", "ENSMUSP00000075122", "7", "107823467", "107822526", "1" ], [ "Q8VF65-1", "Q8VF65-1", "ENSMUST00000073059", "ENSMUSP00000072810", "7", "107845731", "107844790", "1" ], [ "Q8VF64-1", "Q8VF64-1", "ENSMUST00000072974", "ENSMUSP00000072741", "9", "38025808", "38026734", "0" ], [ "Q80T32-1", "B2RXV6-1", "ENSMUST00000156437", "ENSMUSP00000121217", "5", "129097161", "129202556", "0" ], [ "B2RXV4-1", "B2RXV4-1", "ENSMUST00000085635", "ENSMUSP00000082777", "1", "191026093", "191008142", "1" ], [ "B2RXV4-1", "A0A0A6YWJ7-1", "ENSMUST00000191946", "ENSMUSP00000141578", "1", "191026093", "191025356", "1" ], [ "B2RXV4-1", "A0A0A6YXG8-1", "ENSMUST00000192666", "ENSMUSP00000141985", "1", "191025967", "191013426", "1" ], [ "P62492-1", "E9Q3P9-1", "ENSMUST00000169058", "ENSMUSP00000129729", "9", "64737623", "64716946", "1" ], [ "E9Q3P4-1", "E9Q3P4-1", "ENSMUST00000171929", "ENSMUSP00000129738", "1", "189685106", "189642602", "1" ], [ "E9Q3P4-1", "E9Q776-1", "ENSMUST00000165663", "ENSMUSP00000130308", "1", "189685106", "189684647", "1" ], [ "E9Q3P4-1", "F6V6F0-1", "ENSMUST00000165798", "ENSMUSP00000132430", "1", "189648856", "189642697", "1" ], [ "E9Q3P4-1", "E9PY14-1", "ENSMUST00000165962", "ENSMUSP00000132759", "1", "189685106", "189658727", "1" ], [ "P63166-1", "A0A087WRQ4-1", "ENSMUST00000185265", "ENSMUSP00000140729", "1", "59670691", "59640203", "1" ], [ "D3YX29-1", "A0A087WRQ7-1", "ENSMUST00000189243", "ENSMUSP00000140732", "9", "78328182", "78328984", "0" ], [ "A0A087WPJ1-1", "A0A087WRQ1-1", "ENSMUST00000188736", "ENSMUSP00000140726", "10", "100594645", "100618098", "0" ], [ "B2RX88-1", "A0A087WRQ0-1", "ENSMUST00000188449", "ENSMUSP00000140725", "1", "10074913", "10088108", "0" ], [ "A0A087WRQ3-1", "A0A075B5Z4-1", "ENSMUST00000103567", "ENSMUSP00000100344", "14", "52427967", "52428874", "0" ], [ "A0A087WRQ3-1", "A0A087WRQ3-1", "ENSMUST00000185651", "ENSMUSP00000140728", "14", "52427967", "52428874", "0" ], [ "Q9CXG9-1", "A0A0J9YU15-1", "ENSMUST00000202907", "ENSMUSP00000143954", "2", "34911796", "34911164", "1" ], [ "Q9CXG9-1", "Q9CXG9-1", "ENSMUST00000028232", "ENSMUSP00000028232", "2", "34911796", "34895722", "1" ], [ "Q07968-1", "Q07968-1", "ENSMUST00000027615", "ENSMUSP00000027615", "1", "139501746", "139523424", "0" ], [ "A5H0M4-1", "A5H0M4-1", "ENSMUST00000081321", "ENSMUSP00000080069", "8", "27447818", "27495033", "0" ], [ "Q9CXG3-1", "D6RJ77-1", "ENSMUST00000143214", "ENSMUSP00000119332", "10", "7792951", "7795862", "0" ], [ "Q9CXG3-1", "Q9CXG3-1", "ENSMUST00000015901", "ENSMUSP00000015901", "10", "7792951", "7821200", "0" ], [ "A6PWV5-1", "B7ZP08-1", "ENSMUST00000150809", "ENSMUSP00000116411", "4", "41730193", "41724236", "1" ], [ "B1AQ89-1", "B1AQ89-1", "ENSMUST00000104929", "ENSMUSP00000100533", "11", "99650181", "99649657", "1" ], [ "B1AQ89-1", "E9PUW3-1", "ENSMUST00000073126", "ENSMUSP00000131822", "11", "99650181", "99649660", "1" ], [ "Q8R5F8-1", "F7BBD2-1", "ENSMUST00000164987", "ENSMUSP00000130665", "7", "4477666", "4478641", "0" ], [ "Q9R099-1", "F8WI46-1", "ENSMUST00000005508", "ENSMUSP00000005508", "5", "135149738", "135157556", "0" ], [ "Q7TNR9-1", "A0A1B0GST8-1", "ENSMUST00000211073", "ENSMUSP00000148067", "1", "34801794", "34801961", "0" ], [ "Q6P549-1", "A0A1B0GST7-1", "ENSMUST00000210116", "ENSMUSP00000148066", "7", "101830150", "101827445", "1" ], [ "Q61470-1", "A0A1B0GST6-1", "ENSMUST00000210226", "ENSMUSP00000148065", "7", "45235499", "45234678", "1" ], [ "O35400-1", "A0A1B0GST5-1", "ENSMUST00000210754", "ENSMUSP00000148064", "7", "45742360", "45730003", "1" ], [ "B1AQ87-1", "B1AQ87-1", "ENSMUST00000105073", "ENSMUSP00000100694", "11", "99690740", "99690591", "1" ], [ "B1AQ85-1", "B1AQ85-1", "ENSMUST00000058987", "ENSMUSP00000056162", "11", "99635024", "99634524", "1" ], [ "A0A1B0GST0-1", "A0A1B0GST0-1", "ENSMUST00000209952", "ENSMUSP00000148058", "7", "102857280", "102856324", "1" ], [ "A0A1B0GST0-1", "Q7TRS5-1", "ENSMUST00000071393", "ENSMUSP00000071344", "7", "102857271", "102856324", "1" ], [ "Q3UU21-1", "Q3UU21-1", "ENSMUST00000097849", "ENSMUSP00000095461", "4", "134202992", "134191093", "1" ], [ "P01942-1", "Q91VB8-1", "ENSMUST00000093209", "ENSMUSP00000090897", "11", "32283707", "32284388", "0" ], [ "P03899-1", "P03899-1", "ENSMUST00000082411", "ENSMUSP00000080998", "Mitochondrion", "9459", "9803", "0" ], [ "Q3TC93-1", "A0A1W2P6R8-1", "ENSMUST00000220300", "ENSMUSP00000151390", "12", "8317852", "8324033", "0" ], [ "Q9CWR0-1", "A0A1W2P6R9-1", "ENSMUST00000218654", "ENSMUSP00000151325", "10", "127188347", "127182839", "1" ], [ "O35153-1", "A0A1B0GSF3-1", "ENSMUST00000209320", "ENSMUSP00000147913", "7", "140856239", "140854902", "1" ], [ "O35153-1", "A0A1B0GR52-1", "ENSMUST00000211590", "ENSMUSP00000147377", "7", "140856239", "140854427", "1" ], [ "O35153-1", "O35153-1", "ENSMUST00000026557", "ENSMUSP00000026557", "7", "140856239", "140854459", "1" ], [ "O35153-1", "A0A1B0GQV3-1", "ENSMUST00000211624", "ENSMUSP00000147264", "7", "140855115", "140854459", "1" ], [ "O35153-1", "A0A1B0GR53-1", "ENSMUST00000210710", "ENSMUSP00000147378", "7", "140856239", "140854792", "1" ], [ "O35153-1", "A0A1B0GS34-1", "ENSMUST00000211527", "ENSMUSP00000147777", "7", "140856239", "140854459", "1" ], [ "A2RSJ4-1", "A0A1W2P6R4-1", "ENSMUST00000219712", "ENSMUSP00000151385", "10", "89745245", "89772615", "0" ], [ "Q91YE9-1", "A0A1W2P6R5-1", "ENSMUST00000219292", "ENSMUSP00000151376", "12", "10370063", "10380804", "0" ], [ "Q02853-1", "A0A1W2P6R6-1", "ENSMUST00000219728", "ENSMUSP00000151366", "10", "75927363", "75927169", "1" ], [ "Q8BRF7-1", "A0A1W2P6R7-1", "ENSMUST00000218138", "ENSMUSP00000151379", "12", "51422930", "51444800", "0" ], [ "Q6DYE8-1", "A0A1W2P6R0-1", "ENSMUST00000219342", "ENSMUSP00000151371", "10", "24817933", "24808153", "1" ], [ "L0N7N1-1", "L0N759-1", "ENSMUST00000195274", "ENSMUSP00000142040", "1", "136476340", "136479915", "0" ], [ "Q9R092-1", "A0A1W2P6R2-1", "ENSMUST00000219953", "ENSMUSP00000151374", "10", "127998010", "127997708", "1" ], [ "Q9D7Y9-1", "A2AHF0-1", "ENSMUST00000141463", "ENSMUSP00000117485", "2", "136947175", "137000273", "0" ], [ "Q9QYH9-1", "Q9QYH9-1", "ENSMUST00000005976", "ENSMUSP00000005976", "17", "57194069", "57190514", "1" ], [ "P52479-1", "P52479-1", "ENSMUST00000108988", "ENSMUSP00000104616", "8", "119910919", "119956767", "0" ], [ "P52479-1", "P52479-2", "ENSMUST00000144458", "ENSMUSP00000123590", "8", "119910919", "119956767", "0" ], [ "P52479-1", "G3X9U6-1", "ENSMUST00000108982", "ENSMUSP00000104610", "8", "119947743", "119951934", "0" ], [ "P52479-1", "G3UYQ8-1", "ENSMUST00000134729", "ENSMUSP00000134182", "8", "119953275", "119956709", "0" ], [ "A0A0U1RNG7-1", "F7DE04-1", "ENSMUST00000121987", "ENSMUSP00000113765", "7", "97453313", "97454961", "0" ], [ "B1AXU1-1", "B1AXU1-1", "ENSMUST00000074894", "ENSMUSP00000074433", "X", "68893007", "68892518", "1" ], [ "P02762-1", "P02762-1", "ENSMUST00000107506", "ENSMUSP00000103130", "4", "60421886", "60419111", "1" ], [ "P02762-1", "A9C497-1", "ENSMUST00000107477", "ENSMUSP00000103101", "4", "61782158", "61779532", "1" ], [ "Q9QYH6-1", "Q9QYH6-1", "ENSMUST00000026142", "ENSMUSP00000026142", "X", "94541295", "94535871", "1" ], [ "Q3SXJ3-1", "Q3SXJ3-1", "ENSMUST00000099809", "ENSMUSP00000097397", "2", "88910391", "88909462", "1" ], [ "P97427-1", "Q71H75-1", "ENSMUST00000202434", "ENSMUSP00000143847", "5", "37242145", "37268785", "0" ], [ "Q08AU9-1", "A0A6I8MWY8-1", "ENSMUST00000239464", "ENSMUSP00000159327", "11", "107028223", "107029772", "0" ], [ "Q08AU9-1", "A0A1B0GR98-1", "ENSMUST00000140447", "ENSMUSP00000147434", "11", "107025894", "107029772", "0" ], [ "Q08AU9-1", "A0A1B0GT03-1", "ENSMUST00000106767", "ENSMUSP00000148142", "11", "107028410", "107029772", "0" ] ] }, "readme": "Name\n - Mouse Transcript Locus (Ensembl Transcript coordinates)\n\nVersion\n - 1.9.9\n\nCreated on\n - 2019-03-16T16:06:41.833239\n\nModified on\n - 2020-04-10T12:44:17.413281\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 - Th Mouse Transcript Locus (Ensembl Transcript coordinates)contains UniProtKB mouse [taxid:10090] canonical accessions mapped to their isoforms with further mapping to the corresponding ENSEMBL Transcript ID, Peptide ID, chromosome ID along with the transcripts's start and end position. 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 - transcript locus\n - ensembl transcript id\n - ensembl peptide id\n - chromosome\n - Ensembl\n\n Pipeline Steps\n - Step-1: The script loads the UniProtKB accessions that are mapped to UniProtKB isoforms and ENSEMBL Transcript and Peptide identifiers from the triplestore containing triples from nt file and maps it to the UniProtKB canonical accession to finally extract the data as a csv dataset\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-mus-musculus.nt\n URI: https://data.glygen.org/ln2wwwdata/source/uniprot-proteome-mus-musculus.nt\n Output Subdomain\n Name: mouse_protein_transcriptlocus.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/mouse_protein_transcriptlocus.csv\n Name: mouse_protein_transcriptlocus.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/mouse_protein_transcriptlocus.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"1\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"1\"\n Name: \"title\"\n Description: \"Title of the published article in the journal\"\n Unique Values: \"1\"\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: \"1\"\n Name: \"journal_name\"\n Description: \"The name of the journal in which the article is published\"\n Unique Values: \"1\"\n Name: \"authors\"\n Description: \"NA\"\n Unique Values: \"1\"\n Name: \"publication_date\"\n Description: \"Contains the full date on which the issue of the journal was published. Sourced from MEDLINE/PubMed data element(fields) description.\"\n Unique Values: \"1\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"1\"", "downloadurl": "/ln2data/releases/data/v-1.9.9/reviewed/mouse_protein_transcriptlocus.csv" }