CJ-Chen
some incorrect ontologies in output
I used the following AGI numbers AT1G05035 AT4G09200 AT5G03550 AT2G19610 AT2G38600 AT1G56470 AT4G25490 AT4G26730 AT4G15710 AT1G44542 AT4G07465 AT4G06320 AT5G02225 AT4G07290 AT3G19270 AT1G73000 AT3G02525 AT1G21230 AT4G08615 AT1G11925 AT2G01010 AT2G01024 AT2G34990 AT1G76210 AT4G07135 AT4G09375 ATCG00920 AT4G13620 AT5G38120 AT4G26288 AT1G64220 AT5G56075 ATCG01210 AT5G00755 AT5G62730 AT4G26365 AT1G79529 AT5G22680 ATCG01180 AT5G42590 ATCG00950 AT4G15258 AT2G17010 AT3G01313 AT1G35140 AT2G07665 AT3G51075 AT4G06305 AT1G06553 AT1G03506 AT2G42065 AT5G07095 AT4G32510 AT2G29270 AT2G23672 AT5G20540 AT3G06435 AT1G12610 AT4G06225 AT4G37620 AT5G62920 AT5G19120 AT3G45960 ATCG00460 AT3G13065 AT1G09937 AT5G55420 AT3G05900 AT2G27840 AT3G09680 AT1G06463 AT4G27520 AT2G24430 AT3G16560 AT4G29340 AT1G32385 ATCG00330 AT4G34760 AT4G08915 AT4G01430 AT4G06235 AT1G18400 AT3G47520 AT1G04770 AT3G28960 AT3G51325 AT2G23130 ATCG00030 AT2G09490 AT4G02810 AT4G25630 AT3G45970 AT4G23750 AT3G14880 AT2G21640 ATCG01040 AT5G07745 AT3G13525 AT5G57560 AT5G44063 AT1G47395 ATCG00440 AT3G15357 AT4G37450 AT3G18010 AT3G11370 AT5G07900 AT5G07325 AT1G72610 AT1G06087 AT5G00825 AT4G04745 AT5G52930 AT4G23070 ATCG00620 ATCG00400 AT3G41762 AT4G25835 ATCG00040 AT3G09465 ATCG00450 AT1G15870 AT1G29440 AT1G63930 AT4G11460 AT2G07711 AT2G32220 AT4G09620 AT1G47440 AT1G31835 ATCG00090 AT1G33760 AT1G07897 ATCG00610 AT4G09180 AT4G04485 AT3G59068 AT5G62430 AT2G47990 AT3G04770 AT3G21805 AT1G16170 AT5G59240 AT4G31355 AT5G41471 AT1G07167 AT3G03280 AT4G36010 AT5G53250 AT5G53290 AT2G24762 ATMG01380 AT4G34740 AT4G38840 ATCG00230 ATMG01390 AT3G51870 AT3G60750 AT3G01260 AT2G20880 ATMG00130 AT1G31970 ATCG00100 AT3G08275 ATCG00320 AT4G04565 AT5G10040 AT2G01008 AT1G11080 ATCG00160 AT3G55340 AT5G52380 AT2G44460 AT4G30250 AT1G53163 AT3G02832 AT5G44306 AT5G35620 AT1G65900 ATCG00650 AT2G36530 ATCG00300 AT3G44750 AT5G50915 AT5G14440 AT1G49650 AT4G34750 AT3G41768 AT2G28600 ATCG00150 ATCG00380 AT1G12630 ATCG00220 AT5G57785 AT1G72240 AT1G24405 AT4G06265 AT2G43760 AT3G16840 AT1G08115 AT4G01580 AT5G54980 AT3G54830 AT4G27670 AT3G14760 AT2G27402 ATCG00590 AT3G57150 AT3G13230 AT3G07910 AT5G27120 AT1G12013 ATCG00080 ATCG00170 AT1G52855 AT3G55690 AT4G08505 AT2G39010 AT5G09585 AT3G46090 AT3G07735 AT5G53902 AT5G29000 AT3G28420 AT2G07695 AT3G57645 AT3G02435 AT3G58660 AT2G23120 AT2G04965 AT1G60850 AT5G35490 AT5G01505 AT2G07662 AT2G19640 AT2G22600 AT3G04165 AT5G22100 AT5G26220 AT3G23830 AT1G55205 ATCG00360 AT5G22390 AT3G57040 AT1G24580 ATCG00010 AT2G03110 AT5G57280 AT1G06033 AT3G10520 AT3G12340 AT5G22920 AT1G43710 AT4G02970 AT4G00975 AT1G50040 AT3G22310 AT1G54690 AT1G29270 AT4G15770 ATCG00520 AT2G04955 AT3G18600 AT5G15240 AT2G21220 ATCG01090 AT4G38710 AT5G14050 AT2G14460 AT5G49560 AT1G49620 AT3G03920 AT4G25340 AT5G20160 AT1G49200 AT4G27530 AT2G07779 AT1G07070 AT1G06537 AT1G13700 AT2G16660 AT2G44510 AT5G14120 AT3G18130 AT2G42870 AT4G10450 AT1G18850 AT4G10150 AT1G55330 AT2G46310 AT1G61570 AT3G05325 AT2G05765 AT1G13230 AT1G75750 AT2G20490 AT5G48070 AT1G72440 AT1G18320 AT4G38100 AT3G27170 AT1G04635 AT1G62280 AT2G45860 AT1G27050 AT5G51440 AT1G78930 AT1G33055 AT3G12860 AT4G25810 ATMG00640 AT4G00165 AT1G04277 AT4G36020 AT2G05365 AT2G27775 AT2G43375 AT4G37090 AT2G01020 AT5G64620 AT1G30840 ATMG00660 AT5G53486 AT1G20470 AT2G32060 AT1G12020 AT2G37030 ATCG00660 AT3G60890 ATMG00516 AT5G38720 AT5G56080 AT1G08643 AT2G29540 ATMG00080 AT4G28450 AT3G17609 ATCG00740 AT2G45023 ATMG00020 AT1G79150 AT1G19450 AT5G35480 AT5G57180 ATCG00430 ATMG01370 AT3G05060 AT3G58150 AT5G20820 AT5G61770 ATCG00130 AT1G48920 AT3G16810 AT3G61415 AT5G15350 AT5G35630 AT5G65207 AT2G20450 ATMG01090 AT1G03935 AT1G77640 AT3G57490 ATCG00490 AT1G48630 AT5G62900 AT4G32800 AT2G01290 AT3G56070 AT5G06190 AT5G09295 AT2G20722 AT2G05810 AT5G06110 AT1G24090 AT3G28900 AT2G10940 AT5G10580 AT3G07725 AT5G53740 ATMG00030 AT5G52900 AT4G24670 AT1G04973 AT2G45950 AT5G61440 ATCG00510 ATCG00050 ATCG00710 AT4G30280 AT2G18900 AT3G15080 AT3G16780 AT2G42070 AT3G07510 AT2G39390 AT3G47370 AT2G07783 AT3G47348 AT5G65860 AT5G54970 AT3G22660 AT3G47720 AT2G38180 AT3G27620 AT5G61455 ATMG00670 AT4G05410 AT2G20724 AT3G61100 AT3G44860 AT5G09840 AT3G62760 AT3G05715 AT2G14247 ATMG00090 ATCG00720 AT4G10265 AT4G10250 ATCG01070 AT3G10110 AT3G01160 AT1G09087 AT5G13220 AT1G66760 AT5G51460 AT5G20990 AT1G67910 AT1G48570 AT1G57860 AT4G18100 AT1G76160 AT5G08570 ATCG00180 AT4G24972 ATCG01080 AT5G03120 AT2G44860 AT1G03530 AT5G22650 AT5G11740 AT2G01140 AT4G12600 AT1G58380 ATMG00140 ATCG00500 AT2G28815 AT5G06550 AT3G44590 AT3G08520 AT3G10530 AT3G25940 AT2G37600 AT2G07774 AT3G53940 AT3G48830 AT3G16080 AT5G09510 AT1G10470 AT1G75166 AT2G46192 AT1G29510 AT2G24050 AT5G14580 AT3G19360 AT2G45710 AT2G21580 AT2G18010 AT5G14520 AT5G38890 AT1G65310 AT3G13560 AT3G02445 AT5G60670 AT4G29610 AT1G80750 AT1G76110 AT5G03850 AT4G31910 AT5G57120 AT3G04230 AT5G66530 AT5G26790 AT1G77400 AT4G27970 AT1G56110 AT4G20020 AT3G06355 AT2G15690 AT5G09250 AT3G13570 AT4G08755 AT2G08950 AT1G29500 ATMG01170 AT4G12970 AT5G20630 AT5G06000 AT3G23620 AT5G59850 AT3G06680 ATCG00550 AT1G77940 AT2G01200 AT1G04490 AT3G57765 AT1G49700 AT5G20830 AT1G08580 AT1G29430 AT5G06845 AT5G24770 ATCG00530 AT1G22270 AT1G15250 AT1G31660 AT3G59540 AT3G52040 AT1G23100 AT5G59130 AT4G29410 AT3G45160 AT5G56970 AT5G43970 AT1G69070 AT1G08845 AT5G24840 AT4G16700 AT4G13340 ATCG00700 AT3G09580 AT3G59670 ATCG01100 AT1G16000 AT4G39364 AT2G27530 ATCG00470 AT1G28395 AT1G15420 AT1G15440 AT5G43180 AT5G64680 ATMG00630 AT1G16770 AT4G01670 AT1G03360 AT5G42110 AT5G04590 AT4G03292 AT3G52930 AT3G60245 AT1G76170 AT5G54660 AT1G31320 AT4G39070 AT1G61580 AT2G31141 AT4G04810 AT4G17390 AT1G29250 AT3G25670 AT2G09990 AT4G10480 AT5G22440 AT3G55280 AT3G26410 AT5G62440 AT1G09533 AT1G48460 AT1G65030 AT2G39020 AT5G24920 AT1G26910 AT1G01210 AT4G38850 AT1G19940 AT5G35760 AT3G56340 AT3G01820 AT5G64140 AT2G14890 AT2G25670 AT5G19110 AT2G19750 AT2G34260 AT5G57570 AT3G17390 AT5G09730 AT5G52650 AT3G45700 AT5G24570 AT3G54900 AT5G07725 AT3G19440 AT1G29070 AT1G02870 AT3G58700 AT2G07677 AT5G61170 AT5G27990 AT4G39300 ATCG00020 AT3G09810 AT1G02030 AT1G33120 AT2G19620 AT4G26190 AT3G07110 ATCG00290 AT4G30800 AT2G07739 AT3G53430 AT2G19670 AT3G49010 AT5G54095 AT5G41010 AT1G60080 AT5G62710 AT2G37270 AT3G01500 AT4G13572 AT1G80270 ATCG00680 AT2G17250 AT3G25900 AT5G54240 AT3G43980 AT3G12270 AT3G13150 AT1G63810 AT4G35090 AT3G22230 AT1G52827 AT3G62040 AT5G50810 AT5G49645 AT4G17870 AT1G75670 AT3G48930 AT3G05560 AT3G12965 AT3G06530 AT5G66000 AT5G55510 AT1G27400 AT1G49320 AT4G09030 AT4G16410 AT3G60360 AT5G08180 AT5G11240 AT5G47455 AT1G13590 AT3G23390 AT1G66970 AT3G08943 AT4G12545 AT3G55510 AT1G10522 AT1G26880 AT3G49420 AT1G62440 AT1G52905 AT3G21040 AT5G01775 AT4G28162 ATMG01360 AT1G75770 AT4G22380 ATMG00040 AT1G52930 AT4G36680 AT3G49410 AT5G15550 AT3G56825 AT3G28200 ATCG00540 AT1G30960 ATMG00520 AT4G32340 ATCG01050 AT3G06610 AT3G55750 AT2G43650 AT3G05490 ATCG00730 AT1G09950 AT2G46690 AT3G20430 AT3G49910 AT3G63160 AT1G29785 AT2G25480 ATCG00560 AT4G29990 AT3G50560 AT2G24110 AT2G14880 ATCG00340 AT5G02050 AT3G63090 AT5G18840 AT1G31860 AT1G62180 AT5G23070 AT1G04410 AT5G05250 AT3G49430 AT2G25210 AT1G06380 AT5G22788 ATCG00120 AT4G34290 AT3G49080 AT5G19650 AT2G31610 AT2G20940 AT4G36130 AT2G38820 AT3G46940 AT4G31700 AT1G03110 AT1G75190 AT3G03040 AT1G74370 AT5G39890 AT1G07050 ATCG00640 AT3G59650 AT2G07698 AT3G61640 AT1G57660 AT3G55010 AT5G09065 AT5G19810 AT1G76720 AT2G20721 AT1G08610 AT5G10340 AT3G13930 AT5G47600 AT1G04480 AT5G23300 AT3G07430 AT1G75335 AT5G56710 AT1G07270 AT1G68740 AT4G20440 AT1G78230 AT1G66140 AT3G54400 AT3G57500 AT2G08765 AT5G58420 AT5G18380 AT3G28500 AT4G18730 AT2G04050 AT2G03090 AT3G19200 AT1G41880 AT5G02565 AT1G68862 AT3G20240 AT3G56705 AT3G15630 AT1G72370 ATCG00630 AT3G20760 AT3G03900 AT3G13400 AT5G25757 AT1G76420 AT3G24780 AT3G14940 AT3G52960 AT4G34360 AT4G39363 AT3G56090 AT4G27350 AT2G42860 AT5G15810 AT5G66985 ATCG00065 AT5G19820 AT1G33140 AT4G12735 AT1G68500 AT3G56570 AT3G48100 AT3G45030 AT4G26230 AT3G07750 AT2G35605 AT1G71850 AT5G04105 AT3G10090 AT3G23805 AT3G56990 AT3G24515 AT4G01560 AT3G18740 AT5G51540 AT3G48460 AT2G42650 AT3G02190 AT4G24660 AT3G47347 ATMG00060 AT1G19440 AT3G02550 AT1G23205 AT3G48660 AT3G04840 AT2G23340 AT5G15750 ATCG00370 AT3G21540 AT1G09575 AT2G15000 AT5G43960 AT3G54210 AT5G27350 AT1G76810 AT3G23370 AT5G18400 AT1G21220 AT5G47700 AT5G61310 AT3G61110 AT5G65730 AT1G22590 AT3G44010 AT5G02575 AT1G49510 AT5G64080 AT4G38150 AT5G27660 AT4G15000 AT4G28780 AT3G60960 AT4G33865 AT3G60440 AT1G65370 AT5G16130 AT1G67090 AT1G70350 AT5G39210 AT3G46560 AT5G24780 AT1G09750 AT5G55920 AT1G04870 AT1G10270 ATCG00600 AT5G52470 AT5G13830 AT1G64640 AT4G15800 AT1G68945 AT1G16510 AT2G27710 AT1G02380 AT3G11964 AT5G12080 AT1G29418 AT1G16515 AT1G14980 AT5G38410 AT2G44120 AT2G19490 AT1G70600 AT4G37180 AT3G55820 AT2G34570 AT3G10040 ATCG00670 AT1G52300 AT4G16720 AT5G14600 AT1G34030 AT3G13520 AT3G09720 AT1G49410 AT5G23740 AT3G11650 AT1G62150 AT1G73770 AT1G76820 AT5G05860 AT4G32570 AT5G53980 AT5G11160 AT2G28790 AT5G53160 AT2G47110 AT4G33930 AT5G14060 AT3G62720 AT5G63310 AT1G30240 AT5G02610 AT3G62250 AT4G31985 AT3G50570 AT1G16850 AT4G35260 AT5G65900 AT3G13920 AT3G53460 AT3G12110 AT3G43720 AT5G02960 AT5G20720 AT5G27850 AT5G14105 AT3G07590 AT1G06790 AT3G52580 AT3G06700 AT3G23820 AT3G56020 AT5G52890 AT3G13980 AT4G02360 ATMG00690 AT2G36170 AT1G07920 AT1G09340 AT1G08300 AT5G27770 AT2G31730 AT5G03890 AT3G62030 AT3G57000 AT1G35680 AT3G11510 AT1G67430 AT2G18520 AT3G53740 ATCG00190 AT3G45210 AT4G28180 AT5G09380 AT4G31790 AT5G56670 AT3G59710 AT2G39460 AT1G17880 AT3G46210 ATCG00070 AT1G04217 AT3G06360 AT2G18020 AT1G09590 AT4G22570 AT1G15930 AT3G42806 AT2G13550 AT5G05990 AT3G55440 AT2G13820 AT4G29510 AT3G01490 AT2G47610 AT3G11260 AT3G29030 AT2G18220 AT5G02220 AT1G07930 AT5G60990 AT5G06360 AT2G27720 AT1G11475 AT1G43605 AT2G37190 AT5G03230 AT2G27080 AT3G28220 AT1G01100 AT4G00100 AT4G25890 AT3G18773 AT5G51810 AT4G25050 AT2G04390 AT4G00310 AT3G53890 AT5G07090 AT1G78040 AT4G17800 AT5G14740 ATCG00690 AT2G19740 AT2G05220 AT2G41670 AT5G24660 AT2G38360 AT1G07840 AT2G40780 AT3G56910 AT5G20740 ATCG00140 AT5G56000 AT4G05631 AT4G36240 AT1G19990 AT5G28770 AT4G27380 AT1G31760
in GO Enrichment. I used go.obo as the go-basis.obo File (downloaded from here: https://geneontology.org/docs/download-ontology/), GO_Slim was default and I have attached the Background File, as well as the output file in an Excel workbook.
The problem can be seen in the output file. There are a number of GO_ID's duplicated in Molecular Function and Biological Process (for example, GO:0043414 macromolecule methylation, GO:0001510 RNA methylation, GO:0032259 S-adenocylmethionine-dependent methyltransferase activity, GO:0022613 ribonucleoprotein complex biogenesis, GO:0000154 rRNA modification, and at least 12 others. All of these are correctly placed in Biological Process, but they are also incorrectly placed in Molecular Function.
3h_mRNA_UP_TBtools6401630384677201719.enrich.temp.GO.Enrichment.final_origninal.xls
ATH_GO_GOSLIM_AGIsort_processed.csv
