Gene type: Transcription factor Metabolic gene Others DE type: Up Down Slightly_up Slightly_down Mixeded Others

GO Enrichment Analysis of Co-expressed Genes with

AT5G39840

GO-BP
GO-MF
GO-CC
RankGO TermAdjusted P value
1GO:0080180: 2-methylguanosine metabolic process0.00E+00
2GO:0043928: exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay0.00E+00
3GO:0071035: nuclear polyadenylation-dependent rRNA catabolic process0.00E+00
4GO:0090070: positive regulation of ribosome biogenesis0.00E+00
5GO:0071038: nuclear polyadenylation-dependent tRNA catabolic process0.00E+00
6GO:0071034: CUT catabolic process0.00E+00
7GO:0000467: exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)0.00E+00
8GO:0071049: nuclear retention of pre-mRNA with aberrant 3'-ends at the site of transcription0.00E+00
9GO:0039694: viral RNA genome replication0.00E+00
10GO:0090069: regulation of ribosome biogenesis0.00E+00
11GO:0071426: ribonucleoprotein complex export from nucleus0.00E+00
12GO:0006364: rRNA processing1.92E-15
13GO:0000463: maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)5.31E-07
14GO:0042254: ribosome biogenesis1.59E-06
15GO:0009451: RNA modification9.40E-06
16GO:0006405: RNA export from nucleus1.50E-05
17GO:0010501: RNA secondary structure unwinding2.76E-05
18GO:0006606: protein import into nucleus2.76E-05
19GO:0000462: maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)3.24E-05
20GO:0009553: embryo sac development4.39E-05
21GO:0036228: protein targeting to nuclear inner membrane1.00E-04
22GO:0000469: cleavage involved in rRNA processing1.00E-04
23GO:0017183: peptidyl-diphthamide biosynthetic process from peptidyl-histidine1.00E-04
24GO:0030490: maturation of SSU-rRNA1.00E-04
25GO:0010930: negative regulation of auxin mediated signaling pathway1.00E-04
26GO:0072684: mitochondrial tRNA 3'-trailer cleavage, endonucleolytic1.00E-04
27GO:1902182: shoot apical meristem development1.00E-04
28GO:0000972: transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery1.00E-04
29GO:2000232: regulation of rRNA processing1.00E-04
30GO:0043985: histone H4-R3 methylation1.00E-04
31GO:0080009: mRNA methylation2.36E-04
32GO:0071051: polyadenylation-dependent snoRNA 3'-end processing2.36E-04
33GO:0060149: negative regulation of posttranscriptional gene silencing2.36E-04
34GO:0034470: ncRNA processing2.36E-04
35GO:0034475: U4 snRNA 3'-end processing2.36E-04
36GO:0006610: ribosomal protein import into nucleus2.36E-04
37GO:0009793: embryo development ending in seed dormancy3.19E-04
38GO:0006421: asparaginyl-tRNA aminoacylation3.92E-04
39GO:0042780: tRNA 3'-end processing3.92E-04
40GO:0034414: tRNA 3'-trailer cleavage, endonucleolytic3.92E-04
41GO:0034427: nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5'3.92E-04
42GO:0045604: regulation of epidermal cell differentiation3.92E-04
43GO:0007276: gamete generation5.64E-04
44GO:0048825: cotyledon development7.34E-04
45GO:0000460: maturation of 5.8S rRNA7.50E-04
46GO:0006479: protein methylation7.50E-04
47GO:1900864: mitochondrial RNA modification7.50E-04
48GO:0046345: abscisic acid catabolic process7.50E-04
49GO:0042273: ribosomal large subunit biogenesis7.50E-04
50GO:0009790: embryo development8.63E-04
51GO:0000060: protein import into nucleus, translocation1.16E-03
52GO:0030488: tRNA methylation1.38E-03
53GO:0048444: floral organ morphogenesis1.38E-03
54GO:0010077: maintenance of inflorescence meristem identity1.38E-03
55GO:0006400: tRNA modification1.62E-03
56GO:0045995: regulation of embryonic development1.62E-03
57GO:0001522: pseudouridine synthesis1.87E-03
58GO:0000028: ribosomal small subunit assembly1.87E-03
59GO:0019827: stem cell population maintenance1.87E-03
60GO:0042255: ribosome assembly1.87E-03
61GO:0009880: embryonic pattern specification2.14E-03
62GO:2000024: regulation of leaf development2.41E-03
63GO:0001708: cell fate specification2.41E-03
64GO:0006607: NLS-bearing protein import into nucleus2.41E-03
65GO:0006349: regulation of gene expression by genetic imprinting2.70E-03
66GO:1900865: chloroplast RNA modification2.70E-03
67GO:0006913: nucleocytoplasmic transport3.31E-03
68GO:0010582: floral meristem determinacy3.63E-03
69GO:0032259: methylation3.71E-03
70GO:2000012: regulation of auxin polar transport3.95E-03
71GO:0006396: RNA processing4.55E-03
72GO:0010030: positive regulation of seed germination4.64E-03
73GO:0051302: regulation of cell division5.75E-03
74GO:0009561: megagametogenesis7.35E-03
75GO:0051028: mRNA transport7.78E-03
76GO:0006342: chromatin silencing8.65E-03
77GO:0009960: endosperm development8.65E-03
78GO:0010305: leaf vascular tissue pattern formation8.65E-03
79GO:0051301: cell division9.06E-03
80GO:0048366: leaf development1.39E-02
81GO:0009926: auxin polar transport2.22E-02
82GO:0006260: DNA replication2.55E-02
83GO:0009909: regulation of flower development2.95E-02
84GO:0006417: regulation of translation2.95E-02
85GO:0016569: covalent chromatin modification3.38E-02
86GO:0009555: pollen development3.84E-02
87GO:0006457: protein folding4.95E-02
RankGO TermAdjusted P value
1GO:0003963: RNA-3'-phosphate cyclase activity0.00E+00
2GO:0004164: diphthine synthase activity0.00E+00
3GO:0034062: 5'-3' RNA polymerase activity0.00E+00
4GO:0003723: RNA binding1.02E-13
5GO:0000166: nucleotide binding1.38E-12
6GO:0003899: DNA-directed 5'-3' RNA polymerase activity8.62E-07
7GO:0008026: ATP-dependent helicase activity2.56E-06
8GO:0001054: RNA polymerase I activity2.70E-06
9GO:0004004: ATP-dependent RNA helicase activity3.55E-06
10GO:0004519: endonuclease activity1.12E-05
11GO:0030515: snoRNA binding4.38E-05
12GO:0017056: structural constituent of nuclear pore5.73E-05
13GO:0016274: protein-arginine N-methyltransferase activity1.00E-04
14GO:0016422: mRNA (2'-O-methyladenosine-N6-)-methyltransferase activity1.00E-04
15GO:0005487: nucleocytoplasmic transporter activity1.09E-04
16GO:0016891: endoribonuclease activity, producing 5'-phosphomonoesters2.36E-04
17GO:0043021: ribonucleoprotein complex binding2.36E-04
18GO:0008168: methyltransferase activity2.51E-04
19GO:0004816: asparagine-tRNA ligase activity3.92E-04
20GO:0042781: 3'-tRNA processing endoribonuclease activity3.92E-04
21GO:0043022: ribosome binding1.87E-03
22GO:0005543: phospholipid binding3.31E-03
23GO:0004521: endoribonuclease activity3.63E-03
24GO:0001056: RNA polymerase III activity3.63E-03
25GO:0008139: nuclear localization sequence binding3.95E-03
26GO:0004386: helicase activity4.81E-03
27GO:0003887: DNA-directed DNA polymerase activity5.00E-03
28GO:0043130: ubiquitin binding5.37E-03
29GO:0004527: exonuclease activity8.65E-03
30GO:0003713: transcription coactivator activity8.65E-03
31GO:0008536: Ran GTPase binding8.65E-03
32GO:0003676: nucleic acid binding1.27E-02
33GO:0016787: hydrolase activity1.50E-02
34GO:0008757: S-adenosylmethionine-dependent methyltransferase activity1.51E-02
35GO:0000987: core promoter proximal region sequence-specific DNA binding1.91E-02
36GO:0042393: histone binding2.03E-02
37GO:0051082: unfolded protein binding3.53E-02
38GO:0019843: rRNA binding4.14E-02
39GO:0005524: ATP binding4.44E-02
40GO:0008565: protein transporter activity4.70E-02
41GO:0005515: protein binding4.99E-02
RankGO TermAdjusted P value
1GO:0034455: t-UTP complex0.00E+00
2GO:0034388: Pwp2p-containing subcomplex of 90S preribosome0.00E+00
3GO:0036396: MIS complex0.00E+00
4GO:0019034: viral replication complex0.00E+00
5GO:0005730: nucleolus2.70E-21
6GO:0005634: nucleus1.04E-09
7GO:0034399: nuclear periphery5.30E-07
8GO:0070545: PeBoW complex5.31E-07
9GO:0005736: DNA-directed RNA polymerase I complex1.11E-06
10GO:0080008: Cul4-RING E3 ubiquitin ligase complex1.98E-06
11GO:0032040: small-subunit processome3.47E-06
12GO:0030687: preribosome, large subunit precursor4.38E-05
13GO:0030688: preribosome, small subunit precursor1.00E-04
14GO:0044611: nuclear pore inner ring1.00E-04
15GO:0000177: cytoplasmic exosome (RNase complex)2.36E-04
16GO:0044613: nuclear pore central transport channel2.36E-04
17GO:0000176: nuclear exosome (RNase complex)3.92E-04
18GO:0005654: nucleoplasm6.89E-04
19GO:0005643: nuclear pore1.44E-03
20GO:0005666: DNA-directed RNA polymerase III complex2.70E-03
21GO:0005834: heterotrimeric G-protein complex3.91E-03
22GO:0043234: protein complex5.00E-03
23GO:0042651: thylakoid membrane5.75E-03
24GO:0031965: nuclear membrane9.56E-03
25GO:0030529: intracellular ribonucleoprotein complex1.30E-02
26GO:0005829: cytosol1.76E-02
27GO:0005635: nuclear envelope2.88E-02
28GO:0016607: nuclear speck3.17E-02
29GO:0005759: mitochondrial matrix4.87E-02
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Gene type



Gene DE type