{"action":"created","issue":{"url":"https://api.github.com/repos/PATRIC3/patric3_website/issues/1499","repository_url":"https://api.github.com/repos/PATRIC3/patric3_website","labels_url":"https://api.github.com/repos/PATRIC3/patric3_website/issues/1499/labels{/name}","comments_url":"https://api.github.com/repos/PATRIC3/patric3_website/issues/1499/comments","events_url":"https://api.github.com/repos/PATRIC3/patric3_website/issues/1499/events","html_url":"https://github.com/PATRIC3/patric3_website/issues/1499","id":226103897,"number":1499,"title":"Protein mis-identified as misc_feature #2","user":{"login":"ARWattam","id":11475316,"avatar_url":"https://avatars3.githubusercontent.com/u/11475316?v=3","gravatar_id":"","url":"https://api.github.com/users/ARWattam","html_url":"https://github.com/ARWattam","followers_url":"https://api.github.com/users/ARWattam/followers","following_url":"https://api.github.com/users/ARWattam/following{/other_user}","gists_url":"https://api.github.com/users/ARWattam/gists{/gist_id}","starred_url":"https://api.github.com/users/ARWattam/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/ARWattam/subscriptions","organizations_url":"https://api.github.com/users/ARWattam/orgs","repos_url":"https://api.github.com/users/ARWattam/repos","events_url":"https://api.github.com/users/ARWattam/events{/privacy}","received_events_url":"https://api.github.com/users/ARWattam/received_events","type":"User","site_admin":false},"labels":[],"state":"closed","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":5,"created_at":"2017-05-03T20:23:40Z","updated_at":"2017-05-04T13:08:38Z","closed_at":"2017-05-04T12:25:05Z","body":"MMAR_1199 is misc_feature at PaTRIC\r\nhttps://www.patricbrc.org/view/Feature/RefSeq.216594.6.NC_010612.misc_feature.1452647.1456897.fwd\r\n\r\nAt GenBank its a pretty good protein.\r\nhttps://www.ncbi.nlm.nih.gov/protein/183174547"},"comment":{"url":"https://api.github.com/repos/PATRIC3/patric3_website/issues/comments/299179948","html_url":"https://github.com/PATRIC3/patric3_website/issues/1499#issuecomment-299179948","issue_url":"https://api.github.com/repos/PATRIC3/patric3_website/issues/1499","id":299179948,"user":{"login":"mshukla1","id":1236463,"avatar_url":"https://avatars1.githubusercontent.com/u/1236463?v=3","gravatar_id":"","url":"https://api.github.com/users/mshukla1","html_url":"https://github.com/mshukla1","followers_url":"https://api.github.com/users/mshukla1/followers","following_url":"https://api.github.com/users/mshukla1/following{/other_user}","gists_url":"https://api.github.com/users/mshukla1/gists{/gist_id}","starred_url":"https://api.github.com/users/mshukla1/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/mshukla1/subscriptions","organizations_url":"https://api.github.com/users/mshukla1/orgs","repos_url":"https://api.github.com/users/mshukla1/repos","events_url":"https://api.github.com/users/mshukla1/events{/privacy}","received_events_url":"https://api.github.com/users/mshukla1/received_events","type":"User","site_admin":false},"created_at":"2017-05-04T13:08:38Z","updated_at":"2017-05-04T13:08:38Z","body":"you are looking at a misc_feature annotated by RefSeq. Misc features don’t have protein \nsequences. \n\nYou can click on the CDS which overlaps with the misc feature from the cartoon, go to CDS page, \nand then download protein sequence from there. \nhttps://www.patricbrc.org/view/Feature/RefSeq.216594.6.NC_010612.CDS.1452323.1457155.fwd#view_tab=overview <https://www.patricbrc.org/view/Feature/RefSeq.216594.6.NC_010612.CDS.1452323.1457155.fwd#view_tab=overview>\n\nAs much as I like to woo biologists to come to our resource, I don’t think showing\nprotein sequence on a misc feature page for a CDS that just happens to overlaps \nwith a misc feature and clearly much different in length, start and stop, is the solution.\n\n-M\n\n\n\n> On May 4, 2017, at 7:58 AM, ARWattam <notifications@github.com> wrote:\n> \n> You can't get the protein sequence at PATRIC. This is something I am doing\n> for Bill Jacobs, so I imagine that its something a Mycobacterium researcher\n> would do. This is based on a publication for ESX proteins. If people who\n> read that come to PATRIC, they won't be able to proceed. But its not worth\n> fighting over. I can navigate between GenBank and PATRIC. A Mycobacterium\n> researcher willl choose GenBank, though, and we won't woo them over to our\n> resource.\n> \n> On Thu, May 4, 2017 at 8:23 AM, Maulik Shukla <notifications@github.com>\n> wrote:\n> \n> > Both misc feature and CDS are annotated by RefSeq. There is no\n> > corresponding\n> > PATRIC feature. However, PATRIC has two smaller genes overlapping with\n> > them.\n> >\n> > This look like usual annotation difference between gen bank and PATRIC. I\n> > don’t see\n> > any problem.\n> >\n> > https://www.patricbrc.org/view/Feature/RefSeq.216594.6.\n> > NC_010612.misc_feature.1452647.1456897.fwd#view_tab=\n> > genomeBrowser&loc=NC_010612%3A1449646..1459896&highlight=\n> > NC_010612%3A1452647..1456897&tracks=refseqs%2CPATRICGenes%2CRefSeqGenes <\n> > https://www.patricbrc.org/view/Feature/RefSeq.216594.6.\n> > NC_010612.misc_feature.1452647.1456897.fwd#view_tab=\n> > genomeBrowser&loc=NC_010612:1449646..1459896&highlight=NC_\n> > 010612:1452647..1456897&tracks=refseqs,PATRICGenes,RefSeqGenes>\n> >\n> >\n> >\n> >\n> >\n> > > On May 3, 2017, at 3:23 PM, ARWattam <notifications@github.com> wrote:\n> > >\n> > > MMAR_1199 is misc_feature at PaTRIC\n> > > https://www.patricbrc.org/view/Feature/RefSeq.216594.6.\n> > NC_010612.misc_feature.1452647.1456897.fwd <https://www.patricbrc.org/\n> > view/Feature/RefSeq.216594.6.NC_010612.misc_feature.1452647.1456897.fwd>\n> > > At GenBank its a pretty good protein.\n> > > https://www.ncbi.nlm.nih.gov/protein/183174547 <\n> > https://www.ncbi.nlm.nih.gov/protein/183174547>\n> > > —\n> > > You are receiving this because you are subscribed to this thread.\n> > > Reply to this email directly, view it on GitHub <\n> > https://github.com/PATRIC3/patric3_website/issues/1499>, or mute the\n> > thread <https://github.com/notifications/unsubscribe-auth/ABLd70bXqLuiE_\n> > aHT4lkBKJfrZmmMlRKks5r2OJMgaJpZM4NP6D7>.\n> > >\n> >\n> > —\n> > You are receiving this because you authored the thread.\n> > Reply to this email directly, view it on GitHub\n> > <https://github.com/PATRIC3/patric3_website/issues/1499#issuecomment-299169823>,\n> > or mute the thread\n> > <https://github.com/notifications/unsubscribe-auth/AK8ZdOE-csLN1yPGGUZeXHyi6m1oDU4-ks5r2cNQgaJpZM4NP6D7>\n> > .[image: Web Bug from\n> > https://github.com/notifications/beacon/AK8ZdHegcZZA-6EqLVVjjRP6MpwB7KcHks5r2cNQgaJpZM4NP6D7.gif]\n> >\n> —\n> You are receiving this because you modified the open/close state.\n> Reply to this email directly, view it on GitHub <https://github.com/PATRIC3/patric3_website/issues/1499#issuecomment-299177554>, or mute the thread <https://github.com/notifications/unsubscribe-auth/ABLd7yyqUChKBxIDl_uuOyNg2yw7ozywks5r2ct-gaJpZM4NP6D7>.\n> \n\n"}}
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