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japonicusdb / japonicus-curation

Data files for JaponicusDB
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Compara/PomBase differences #40

Open ValWood opened 2 years ago

ValWood commented 2 years ago

check:

uniquename compara pombase

SJAG_00057 YDR345C,YFL011W,YDR345C YEL069C,YGR289C,YDR536W,YLR081W,YNR072W,YJR158W,YDL245C,YNL318C,YEL069C,YOL156W,YJL219W,YJL214W,YDR342C,YDR343C,YHR096C,YHR092C,YMR011W,YHR094C,YGR289C,YDR536W,YLR081W,YNR072W,YJR158W,YDL245C,YNL318C,YOL156W,YJL219W,YJL214W,YDR342C,YDR343C,YHR096C,YHR092C,YMR011W,YHR094C

SJAG_03606 YFL011W,YDR345C,YFL011W YJL219W,YHR094C,YMR011W,YHR092C,YHR096C,YDR343C,YDR342C,YJL214W,YJL219W,YOL156W,YEL069C,YNL318C,YDL245C,YJR158W,YNR072W,YLR081W,YDR536W,YGR289C,YHR094C,YMR011W,YHR092C,YHR096C,YDR343C,YDR342C,YJL214W,YOL156W,YEL069C,YNL318C,YDL245C,YJR158W,YNR072W,YLR081W,YDR536W,YGR289C

SJAG_03608 YDR345C,YFL011W YHR094C,YGR289C,YHR096C,YMR011W,YDR343C,YDR342C,YHR092C,YJL214W,YJL219W,YOL156W,YEL069C,YNL318C,YDL245C,YJR158W,YNR072W,YLR081W,YDR536W,YGR289C,YDR536W,YLR081W,YNR072W,YJR158W,YDL245C,YNL318C,YEL069C,YOL156W,YJL219W,YJL214W,YDR342C,YDR343C,YHR096C,YHR092C,YMR011W,YHR094C

SJAG_03820 YDR345C,YFL011W,YDR345C YJR158W,YGR289C,YDR536W,YLR081W,YNR072W,YJR158W,YDL245C,YNL318C,YEL069C,YOL156W,YJL219W,YJL214W,YDR342C,YDR343C,YHR096C,YHR092C,YMR011W,YHR094C,YGR289C,YDR536W,YLR081W,YNR072W,YDL245C,YNL318C,YEL069C,YOL156W,YJL219W,YJL214W,YDR342C,YDR343C,YHR096C,YHR092C,YMR011W,YHR094C

SJAG_00058 YDR235W YML046W (Action, add YDR235W to SP SPBC4B4.09)

SJAG_00339 YER039C-A YGL225W,YER039C SJAG_00735 YOR213C YPL129W SJAG_00803 YGR068C YOR018W,YFR022W SJAG_01122 YBR195C YMR131C SJAG_01129 YPL036W YGL008C SJAG_01297 YPL155C YGL216W SJAG_01382 YOR069W YJL036W SJAG_01430 YPR122W YLR389C SJAG_01456 YDL137W,YDL192W YOR094W SJAG_01491 YDR307W YJR143C SJAG_01669 YPL036W YGL008C SJAG_01686 YGR068C YFR022W,YOR018W SJAG_01731 YDR093W YER166W SJAG_01770 YJL108C YJL107C SJAG_01783 YPL100W YFR021W SJAG_01835 YMR215W,YOL132W YLR343W SJAG_01964 YHR129C YDL029W SJAG_02011 YGL140C YDL231C SJAG_02218 YBR182C,YPL089C,YBR182C YMR043W,YMR042W SJAG_02252 YDR146C YLR131C SJAG_02336 YPL155C YGL216W SJAG_02344 YHR048W YPR156C,YGR138C SJAG_02439 YEL056W YBR195C SJAG_02444 YHR005C YER020W SJAG_02453 YJR005W,YKL135C YGR261C SJAG_02468 YDR466W YDR490C,YOL100W SJAG_02486 YCL068C,YCR038C YLR310C SJAG_02730 YER040W YFL021W SJAG_02819 YCL068C,YCR038C YLR310C SJAG_02878 YHL007C YNL278W,YOL113W SJAG_02897 YER166W YDR093W SJAG_02955 YBR132C YBR069C,YOL020W,YNL270C,YNL268W,YKR039W,YGR191W,YEL063C,YDR508C,YDR046C,YCL025C,YBR068C,YPL265W,YOR348C SJAG_03290 YPL017C YFL018C SJAG_03299 YKL068W,YMR047C YGL092W SJAG_03516 YFL050C YOL130W SJAG_03525 YPR120C,YGR109C,YPR120C YLR210W,YDL155W SJAG_03529 YGR052W YHR082C SJAG_03760 YHR049W,YOR280C YMR222C SJAG_04053 YGR198W YGR199W,YOR321W,YAL023C SJAG_04136 YGR121C,YPR138C YNL142W SJAG_04258 YGL008C YPL036W SJAG_04277 YOR011W,YIL013C,YOR011W YNR070W,YOR153W,YDR406W,YOR153W,YOR328W,YPL058C,YNR070W,YDR011W,YPL058C,YOR328W SJAG_04425 YMR321C YLL062C,YPL273W SJAG_04460 YER093C-A YER093C SJAG_04598 YAR002C-A YGL002W,YHR110W

check SJAG_04007 YER182W YBL095W

SJAG_04850 YKL046C YMR238W SJAG_04851 YKL046C YMR238W SJAG_00310 YKL046C YMR238W SJAG_05272 YMR238W YKL046C

SJAG_04905 YDR345C,YFL011W,YDR345C YNL318C,YJR158W,YNR072W,YLR081W,YDR536W,YGR289C,YHR094C,YMR011W,YHR092C,YHR096C,YDR343C,YJL219W,YDR342C,YJL214W,YJL219W,YOL156W,YEL069C,YNL318C,YDL245C,YGR289C,YDR536W,YLR081W,YNR072W,YJR158W,YHR096C,YHR092C,YMR011W,YDR343C,YDR342C,YJL214W,YHR094C,YOL156W,YEL069C,YDL245C SJAG_04953 YCR083W YLR043C,YGR209C SJAG_04957 YJL108C YJL107C (possible gene merge?)

needs more checking

SJAG_05290 YDR466W YOL100W,YDR490C

ValWood commented 2 years ago

ignore, (compara does not resolve independent orthologs) ~SJAG_00279 YIL159W YNL271C~ ~SJAG_00298 YJR084W YOL072W~ ~SJAG_00913 YOR038C YBL008W~ ~SJAG_00925 YBL008W YOR038C~ ~SJAG_00474 YBR212W YHR086W~ ~SJAG_00631 YOR292C YLR251W~ ~SJAG_00693 YDL056W YER111C~ ~SJAG_02573 YHR086W YBR212W~

ValWood commented 2 years ago

ignore, (compara does not resolve independent orthologs) ~SJAG_04219 YDR425W YDL113C~ ~SJAG_04699 YGR188C YJL013C~ bub1 & mad3 ~SJAG_04724 YIL044C YGL181W~ ~SJAG_04874 YHL014C YBR025C~ ~SJAG_04008 YKL087C YAL039C~ ~SJAG_04050 YHR097C YDR348C~ ~SJAG_03688 YLR314C YHR107C~ ~SJAG_02584 YOR275C YPL084W~ ~SJAG_02589 YJL176C YFR037C~ ~SJAG_02640 YFL005W YFL038C~ ypt1&2

I'll continue to chip away at these but this is enough to convince me there are no major issues with the manual orthologs.