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

AT3G56290

GO-BP
GO-MF
GO-CC
RankGO TermAdjusted P value
1GO:0090470: shoot organ boundary specification0.00E+00
2GO:0010477: response to sulfur dioxide0.00E+00
3GO:0009661: chromoplast organization0.00E+00
4GO:0010243: response to organonitrogen compound0.00E+00
5GO:0018293: protein-FAD linkage0.00E+00
6GO:0033317: pantothenate biosynthetic process from valine0.00E+00
7GO:0034553: mitochondrial respiratory chain complex II assembly0.00E+00
8GO:0032780: negative regulation of ATPase activity0.00E+00
9GO:0019379: sulfate assimilation, phosphoadenylyl sulfate reduction by phosphoadenylyl-sulfate reductase (thioredoxin)0.00E+00
10GO:0055114: oxidation-reduction process1.71E-09
11GO:0009902: chloroplast relocation8.06E-07
12GO:0042754: negative regulation of circadian rhythm6.50E-06
13GO:0007623: circadian rhythm9.72E-06
14GO:0010100: negative regulation of photomorphogenesis2.05E-05
15GO:0071483: cellular response to blue light8.79E-05
16GO:0016120: carotene biosynthetic process1.37E-04
17GO:0010236: plastoquinone biosynthetic process1.37E-04
18GO:0010190: cytochrome b6f complex assembly1.97E-04
19GO:0010304: PSII associated light-harvesting complex II catabolic process1.97E-04
20GO:0006555: methionine metabolic process1.97E-04
21GO:0009903: chloroplast avoidance movement2.66E-04
22GO:0019509: L-methionine salvage from methylthioadenosine2.66E-04
23GO:0046467: membrane lipid biosynthetic process3.81E-04
24GO:1902265: abscisic acid homeostasis3.81E-04
25GO:0015798: myo-inositol transport3.81E-04
26GO:0071461: cellular response to redox state3.81E-04
27GO:0048438: floral whorl development3.81E-04
28GO:0006430: lysyl-tRNA aminoacylation3.81E-04
29GO:0080065: 4-alpha-methyl-delta7-sterol oxidation3.81E-04
30GO:0006835: dicarboxylic acid transport3.81E-04
31GO:0010362: negative regulation of anion channel activity by blue light3.81E-04
32GO:0048574: long-day photoperiodism, flowering5.27E-04
33GO:0019388: galactose catabolic process8.27E-04
34GO:2000030: regulation of response to red or far red light8.27E-04
35GO:0007154: cell communication8.27E-04
36GO:0010220: positive regulation of vernalization response8.27E-04
37GO:0006898: receptor-mediated endocytosis8.27E-04
38GO:1904143: positive regulation of carotenoid biosynthetic process8.27E-04
39GO:0080183: response to photooxidative stress8.27E-04
40GO:0043100: pyrimidine nucleobase salvage8.27E-04
41GO:0043496: regulation of protein homodimerization activity8.27E-04
42GO:0080005: photosystem stoichiometry adjustment8.27E-04
43GO:0009970: cellular response to sulfate starvation8.68E-04
44GO:0000103: sulfate assimilation8.68E-04
45GO:0009773: photosynthetic electron transport in photosystem I9.99E-04
46GO:0015995: chlorophyll biosynthetic process1.19E-03
47GO:0019419: sulfate reduction1.34E-03
48GO:0071230: cellular response to amino acid stimulus1.34E-03
49GO:1901562: response to paraquat1.34E-03
50GO:0015940: pantothenate biosynthetic process1.34E-03
51GO:0006696: ergosterol biosynthetic process1.34E-03
52GO:0044375: regulation of peroxisome size1.34E-03
53GO:0016570: histone modification1.34E-03
54GO:0031022: nuclear migration along microfilament1.34E-03
55GO:0043433: negative regulation of sequence-specific DNA binding transcription factor activity1.93E-03
56GO:0009590: detection of gravity1.93E-03
57GO:0050482: arachidonic acid secretion1.93E-03
58GO:0010148: transpiration1.93E-03
59GO:2001141: regulation of RNA biosynthetic process1.93E-03
60GO:0010371: regulation of gibberellin biosynthetic process1.93E-03
61GO:0071484: cellular response to light intensity1.93E-03
62GO:0008299: isoprenoid biosynthetic process2.22E-03
63GO:0009640: photomorphogenesis2.53E-03
64GO:0015994: chlorophyll metabolic process2.60E-03
65GO:0010600: regulation of auxin biosynthetic process2.60E-03
66GO:0010021: amylopectin biosynthetic process2.60E-03
67GO:0006646: phosphatidylethanolamine biosynthetic process2.60E-03
68GO:0070534: protein K63-linked ubiquitination2.60E-03
69GO:0015743: malate transport2.60E-03
70GO:0071585: detoxification of cadmium ion2.60E-03
71GO:0016226: iron-sulfur cluster assembly2.67E-03
72GO:0009739: response to gibberellin2.97E-03
73GO:0010117: photoprotection3.32E-03
74GO:0009904: chloroplast accumulation movement3.32E-03
75GO:0016117: carotenoid biosynthetic process3.44E-03
76GO:0009753: response to jasmonic acid3.68E-03
77GO:0048317: seed morphogenesis4.11E-03
78GO:0000060: protein import into nucleus, translocation4.11E-03
79GO:0019243: methylglyoxal catabolic process to D-lactate via S-lactoyl-glutathione4.11E-03
80GO:0006121: mitochondrial electron transport, succinate to ubiquinone4.11E-03
81GO:0006301: postreplication repair4.11E-03
82GO:0070814: hydrogen sulfide biosynthetic process4.11E-03
83GO:0009909: regulation of flower development4.22E-03
84GO:0019252: starch biosynthetic process4.62E-03
85GO:0010076: maintenance of floral meristem identity4.95E-03
86GO:0080060: integument development4.95E-03
87GO:0048510: regulation of timing of transition from vegetative to reproductive phase4.95E-03
88GO:0017148: negative regulation of translation4.95E-03
89GO:0010189: vitamin E biosynthetic process4.95E-03
90GO:0010019: chloroplast-nucleus signaling pathway4.95E-03
91GO:0009648: photoperiodism4.95E-03
92GO:0010077: maintenance of inflorescence meristem identity4.95E-03
93GO:1901001: negative regulation of response to salt stress4.95E-03
94GO:0010038: response to metal ion5.85E-03
95GO:0050790: regulation of catalytic activity5.85E-03
96GO:0009864: induced systemic resistance, jasmonic acid mediated signaling pathway5.85E-03
97GO:0045995: regulation of embryonic development5.85E-03
98GO:0006368: transcription elongation from RNA polymerase II promoter5.85E-03
99GO:0070370: cellular heat acclimation5.85E-03
100GO:0006508: proteolysis6.52E-03
101GO:0005978: glycogen biosynthetic process6.80E-03
102GO:0009787: regulation of abscisic acid-activated signaling pathway6.80E-03
103GO:0050821: protein stabilization6.80E-03
104GO:0009231: riboflavin biosynthetic process6.80E-03
105GO:0006102: isocitrate metabolic process6.80E-03
106GO:0016559: peroxisome fission6.80E-03
107GO:0006644: phospholipid metabolic process6.80E-03
108GO:0048564: photosystem I assembly6.80E-03
109GO:0030091: protein repair6.80E-03
110GO:0016126: sterol biosynthetic process7.16E-03
111GO:0071482: cellular response to light stimulus7.80E-03
112GO:0015996: chlorophyll catabolic process7.80E-03
113GO:0042128: nitrate assimilation8.01E-03
114GO:0010206: photosystem II repair8.86E-03
115GO:0034765: regulation of ion transmembrane transport8.86E-03
116GO:0009835: fruit ripening8.86E-03
117GO:0009821: alkaloid biosynthetic process8.86E-03
118GO:0045454: cell redox homeostasis8.89E-03
119GO:0018298: protein-chromophore linkage9.36E-03
120GO:0009098: leucine biosynthetic process9.96E-03
121GO:0051453: regulation of intracellular pH9.96E-03
122GO:0010205: photoinhibition9.96E-03
123GO:0009638: phototropism9.96E-03
124GO:0006811: ion transport1.03E-02
125GO:0051555: flavonol biosynthetic process1.11E-02
126GO:0006995: cellular response to nitrogen starvation1.11E-02
127GO:0045036: protein targeting to chloroplast1.11E-02
128GO:0009637: response to blue light1.19E-02
129GO:0006816: calcium ion transport1.23E-02
130GO:0043085: positive regulation of catalytic activity1.23E-02
131GO:1903507: negative regulation of nucleic acid-templated transcription1.23E-02
132GO:0006879: cellular iron ion homeostasis1.23E-02
133GO:0008285: negative regulation of cell proliferation1.23E-02
134GO:0006352: DNA-templated transcription, initiation1.23E-02
135GO:0000272: polysaccharide catabolic process1.23E-02
136GO:0016485: protein processing1.23E-02
137GO:0048229: gametophyte development1.23E-02
138GO:0034599: cellular response to oxidative stress1.24E-02
139GO:0006099: tricarboxylic acid cycle1.24E-02
140GO:0010582: floral meristem determinacy1.36E-02
141GO:0006790: sulfur compound metabolic process1.36E-02
142GO:0009785: blue light signaling pathway1.48E-02
143GO:0006006: glucose metabolic process1.48E-02
144GO:0009718: anthocyanin-containing compound biosynthetic process1.48E-02
145GO:0009767: photosynthetic electron transport chain1.48E-02
146GO:0005986: sucrose biosynthetic process1.48E-02
147GO:0030048: actin filament-based movement1.48E-02
148GO:0007015: actin filament organization1.62E-02
149GO:0010207: photosystem II assembly1.62E-02
150GO:0007031: peroxisome organization1.75E-02
151GO:0006071: glycerol metabolic process1.89E-02
152GO:0042538: hyperosmotic salinity response1.93E-02
153GO:0009658: chloroplast organization2.03E-02
154GO:0051017: actin filament bundle assembly2.04E-02
155GO:0019344: cysteine biosynthetic process2.04E-02
156GO:0051603: proteolysis involved in cellular protein catabolic process2.15E-02
157GO:0006418: tRNA aminoacylation for protein translation2.19E-02
158GO:0006874: cellular calcium ion homeostasis2.19E-02
159GO:0010073: meristem maintenance2.19E-02
160GO:0006366: transcription from RNA polymerase II promoter2.34E-02
161GO:0061077: chaperone-mediated protein folding2.34E-02
162GO:0031408: oxylipin biosynthetic process2.34E-02
163GO:0046686: response to cadmium ion2.43E-02
164GO:0009723: response to ethylene2.44E-02
165GO:2000022: regulation of jasmonic acid mediated signaling pathway2.50E-02
166GO:0010017: red or far-red light signaling pathway2.50E-02
167GO:0009693: ethylene biosynthetic process2.65E-02
168GO:0040007: growth2.65E-02
169GO:0010227: floral organ abscission2.65E-02
170GO:0006817: phosphate ion transport2.82E-02
171GO:0009624: response to nematode2.96E-02
172GO:0044550: secondary metabolite biosynthetic process2.96E-02
173GO:0035556: intracellular signal transduction3.11E-02
174GO:0015979: photosynthesis3.14E-02
175GO:0080022: primary root development3.15E-02
176GO:0042335: cuticle development3.15E-02
177GO:0042391: regulation of membrane potential3.15E-02
178GO:0010118: stomatal movement3.15E-02
179GO:0042631: cellular response to water deprivation3.15E-02
180GO:0006662: glycerol ether metabolic process3.33E-02
181GO:0010182: sugar mediated signaling pathway3.33E-02
182GO:0009741: response to brassinosteroid3.33E-02
183GO:0006520: cellular amino acid metabolic process3.33E-02
184GO:0006814: sodium ion transport3.50E-02
185GO:0042752: regulation of circadian rhythm3.50E-02
186GO:0008654: phospholipid biosynthetic process3.68E-02
187GO:0009851: auxin biosynthetic process3.68E-02
188GO:0009058: biosynthetic process3.90E-02
189GO:0019761: glucosinolate biosynthetic process4.05E-02
190GO:0009630: gravitropism4.05E-02
191GO:0030163: protein catabolic process4.24E-02
192GO:0009751: response to salicylic acid4.24E-02
193GO:0006464: cellular protein modification process4.43E-02
194GO:0009567: double fertilization forming a zygote and endosperm4.43E-02
195GO:0071805: potassium ion transmembrane transport4.62E-02
RankGO TermAdjusted P value
1GO:0009673: low-affinity phosphate transmembrane transporter activity0.00E+00
2GO:0050486: intramolecular transferase activity, transferring hydroxy groups0.00E+00
3GO:0015205: nucleobase transmembrane transporter activity0.00E+00
4GO:0017153: sodium:dicarboxylate symporter activity0.00E+00
5GO:0008482: sulfite oxidase activity0.00E+00
6GO:0046905: phytoene synthase activity0.00E+00
7GO:0047501: (+)-neomenthol dehydrogenase activity0.00E+00
8GO:0042030: ATPase inhibitor activity0.00E+00
9GO:0004592: pantoate-beta-alanine ligase activity0.00E+00
10GO:0035798: 2-alkenal reductase (NADP+) activity0.00E+00
11GO:0016767: geranylgeranyl-diphosphate geranylgeranyltransferase activity0.00E+00
12GO:0050342: tocopherol O-methyltransferase activity0.00E+00
13GO:0045436: lycopene beta cyclase activity0.00E+00
14GO:0047504: (-)-menthol dehydrogenase activity0.00E+00
15GO:0016491: oxidoreductase activity3.27E-07
16GO:0052924: all-trans-nonaprenyl-diphosphate synthase (geranylgeranyl-diphosphate specific) activity6.50E-06
17GO:0050347: trans-octaprenyltranstransferase activity6.50E-06
18GO:0004180: carboxypeptidase activity2.27E-05
19GO:0010309: acireductone dioxygenase [iron(II)-requiring] activity2.27E-05
20GO:0010277: chlorophyllide a oxygenase [overall] activity2.27E-05
21GO:0000989: transcription factor activity, transcription factor binding2.81E-05
22GO:0008106: alcohol dehydrogenase (NADP+) activity4.98E-05
23GO:0004176: ATP-dependent peptidase activity2.39E-04
24GO:0016783: sulfurtransferase activity3.81E-04
25GO:0016780: phosphotransferase activity, for other substituted phosphate groups3.81E-04
26GO:0008066: glutamate receptor activity3.81E-04
27GO:0004307: ethanolaminephosphotransferase activity3.81E-04
28GO:0051996: squalene synthase activity3.81E-04
29GO:0010313: phytochrome binding3.81E-04
30GO:0004328: formamidase activity3.81E-04
31GO:0051741: 2-methyl-6-phytyl-1,4-benzoquinone methyltransferase activity3.81E-04
32GO:0008793: aromatic-amino-acid:2-oxoglutarate aminotransferase activity3.81E-04
33GO:0016784: 3-mercaptopyruvate sulfurtransferase activity3.81E-04
34GO:0035671: enone reductase activity3.81E-04
35GO:0046906: tetrapyrrole binding3.81E-04
36GO:0004824: lysine-tRNA ligase activity3.81E-04
37GO:0004719: protein-L-isoaspartate (D-aspartate) O-methyltransferase activity3.81E-04
38GO:0042802: identical protein binding7.95E-04
39GO:0004604: phosphoadenylyl-sulfate reductase (thioredoxin) activity8.27E-04
40GO:0004614: phosphoglucomutase activity8.27E-04
41GO:0004450: isocitrate dehydrogenase (NADP+) activity8.27E-04
42GO:0030572: phosphatidyltransferase activity8.27E-04
43GO:0004046: aminoacylase activity8.27E-04
44GO:0004142: diacylglycerol cholinephosphotransferase activity8.27E-04
45GO:0004310: farnesyl-diphosphate farnesyltransferase activity8.27E-04
46GO:0005366: myo-inositol:proton symporter activity8.27E-04
47GO:0003988: acetyl-CoA C-acyltransferase activity8.27E-04
48GO:0008967: phosphoglycolate phosphatase activity8.27E-04
49GO:0016868: intramolecular transferase activity, phosphotransferases8.27E-04
50GO:0043425: bHLH transcription factor binding8.27E-04
51GO:0033741: adenylyl-sulfate reductase (glutathione) activity8.27E-04
52GO:0008686: 3,4-dihydroxy-2-butanone-4-phosphate synthase activity8.27E-04
53GO:0033201: alpha-1,4-glucan synthase activity8.27E-04
54GO:0015173: aromatic amino acid transmembrane transporter activity8.27E-04
55GO:0009973: adenylyl-sulfate reductase activity8.27E-04
56GO:1990269: RNA polymerase II C-terminal domain phosphoserine binding8.27E-04
57GO:0008237: metallopeptidase activity8.41E-04
58GO:0019904: protein domain specific binding9.99E-04
59GO:0005506: iron ion binding1.10E-03
60GO:0008236: serine-type peptidase activity1.27E-03
61GO:0004373: glycogen (starch) synthase activity1.34E-03
62GO:0003955: NAD(P)H dehydrogenase (quinone) activity1.34E-03
63GO:0050307: sucrose-phosphate phosphatase activity1.34E-03
64GO:0003913: DNA photolyase activity1.34E-03
65GO:0032947: protein complex scaffold1.34E-03
66GO:0004557: alpha-galactosidase activity1.34E-03
67GO:0003861: 3-isopropylmalate dehydratase activity1.34E-03
68GO:0004781: sulfate adenylyltransferase (ATP) activity1.34E-03
69GO:0003935: GTP cyclohydrolase II activity1.34E-03
70GO:0004096: catalase activity1.34E-03
71GO:0001076: transcription factor activity, RNA polymerase II transcription factor binding1.34E-03
72GO:0004222: metalloendopeptidase activity1.53E-03
73GO:0048027: mRNA 5'-UTR binding1.93E-03
74GO:0004792: thiosulfate sulfurtransferase activity1.93E-03
75GO:0016811: hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides1.93E-03
76GO:0004416: hydroxyacylglutathione hydrolase activity1.93E-03
77GO:0009882: blue light photoreceptor activity1.93E-03
78GO:0004742: dihydrolipoyllysine-residue acetyltransferase activity1.93E-03
79GO:0000254: C-4 methylsterol oxidase activity1.93E-03
80GO:0015175: neutral amino acid transmembrane transporter activity1.93E-03
81GO:0009011: starch synthase activity2.60E-03
82GO:0016987: sigma factor activity2.60E-03
83GO:0004506: squalene monooxygenase activity2.60E-03
84GO:0001053: plastid sigma factor activity2.60E-03
85GO:0008177: succinate dehydrogenase (ubiquinone) activity3.32E-03
86GO:0004623: phospholipase A2 activity3.32E-03
87GO:0030151: molybdenum ion binding3.32E-03
88GO:0045431: flavonol synthase activity3.32E-03
89GO:0004069: L-aspartate:2-oxoglutarate aminotransferase activity4.11E-03
90GO:0003860: 3-hydroxyisobutyryl-CoA hydrolase activity4.11E-03
91GO:0000293: ferric-chelate reductase activity4.11E-03
92GO:0004709: MAP kinase kinase kinase activity4.11E-03
93GO:0010181: FMN binding4.31E-03
94GO:0016161: beta-amylase activity4.95E-03
95GO:0005242: inward rectifier potassium channel activity4.95E-03
96GO:0048038: quinone binding4.95E-03
97GO:0016671: oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor5.64E-03
98GO:0019899: enzyme binding5.85E-03
99GO:0009881: photoreceptor activity5.85E-03
100GO:0015140: malate transmembrane transporter activity5.85E-03
101GO:0016621: cinnamoyl-CoA reductase activity5.85E-03
102GO:0016791: phosphatase activity6.00E-03
103GO:0030674: protein binding, bridging6.80E-03
104GO:0016847: 1-aminocyclopropane-1-carboxylate synthase activity6.80E-03
105GO:0016887: ATPase activity7.01E-03
106GO:0005515: protein binding7.74E-03
107GO:0016705: oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen8.00E-03
108GO:0008889: glycerophosphodiester phosphodiesterase activity8.86E-03
109GO:0016844: strictosidine synthase activity9.96E-03
110GO:0015662: ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism1.48E-02
111GO:0005315: inorganic phosphate transmembrane transporter activity1.48E-02
112GO:0031072: heat shock protein binding1.48E-02
113GO:0000155: phosphorelay sensor kinase activity1.48E-02
114GO:0005262: calcium channel activity1.48E-02
115GO:0042973: glucan endo-1,3-beta-D-glucosidase activity1.62E-02
116GO:0051537: 2 iron, 2 sulfur cluster binding1.66E-02
117GO:0015293: symporter activity1.73E-02
118GO:0004970: ionotropic glutamate receptor activity1.75E-02
119GO:0005217: intracellular ligand-gated ion channel activity1.75E-02
120GO:0000287: magnesium ion binding1.98E-02
121GO:0001046: core promoter sequence-specific DNA binding2.04E-02
122GO:0003714: transcription corepressor activity2.04E-02
123GO:0051536: iron-sulfur cluster binding2.04E-02
124GO:0005528: FK506 binding2.04E-02
125GO:0020037: heme binding2.49E-02
126GO:0047134: protein-disulfide reductase activity2.98E-02
127GO:0004812: aminoacyl-tRNA ligase activity2.98E-02
128GO:0015035: protein disulfide oxidoreductase activity3.05E-02
129GO:0030551: cyclic nucleotide binding3.15E-02
130GO:0005249: voltage-gated potassium channel activity3.15E-02
131GO:0004527: exonuclease activity3.33E-02
132GO:0016538: cyclin-dependent protein serine/threonine kinase regulator activity3.33E-02
133GO:0008080: N-acetyltransferase activity3.33E-02
134GO:0050662: coenzyme binding3.50E-02
135GO:0004791: thioredoxin-disulfide reductase activity3.50E-02
136GO:0005215: transporter activity3.51E-02
137GO:0042803: protein homodimerization activity3.53E-02
138GO:0016709: oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD(P)H as one donor, and incorporation of one atom of oxygen3.66E-02
139GO:0004518: nuclease activity4.05E-02
140GO:0004197: cysteine-type endopeptidase activity4.05E-02
141GO:0008483: transaminase activity4.62E-02
142GO:0019825: oxygen binding4.79E-02
143GO:0016413: O-acetyltransferase activity4.82E-02
RankGO TermAdjusted P value
1GO:0031313: extrinsic component of endosome membrane0.00E+00
2GO:0009507: chloroplast1.33E-14
3GO:0009535: chloroplast thylakoid membrane1.25E-06
4GO:0005777: peroxisome6.19E-05
5GO:0031969: chloroplast membrane6.93E-05
6GO:0031234: extrinsic component of cytoplasmic side of plasma membrane3.81E-04
7GO:0031972: chloroplast intermembrane space3.81E-04
8GO:0045254: pyruvate dehydrogenase complex8.27E-04
9GO:0010319: stromule8.41E-04
10GO:0005773: vacuole8.72E-04
11GO:0009706: chloroplast inner membrane1.09E-03
12GO:0009526: plastid envelope2.60E-03
13GO:0031372: UBC13-MMS2 complex2.60E-03
14GO:0016593: Cdc73/Paf1 complex2.60E-03
15GO:0009570: chloroplast stroma4.00E-03
16GO:0009536: plastid5.46E-03
17GO:0031982: vesicle6.80E-03
18GO:0009501: amyloplast6.80E-03
19GO:0010287: plastoglobule7.22E-03
20GO:0005779: integral component of peroxisomal membrane7.80E-03
21GO:0009514: glyoxysome7.80E-03
22GO:0009941: chloroplast envelope8.17E-03
23GO:0010598: NAD(P)H dehydrogenase complex (plastoquinone)8.86E-03
24GO:0005884: actin filament1.23E-02
25GO:0005764: lysosome1.62E-02
26GO:0042651: thylakoid membrane2.19E-02
27GO:0009532: plastid stroma2.34E-02
28GO:0005747: mitochondrial respiratory chain complex I2.54E-02
29GO:0009543: chloroplast thylakoid lumen3.70E-02
30GO:0009534: chloroplast thylakoid3.79E-02
31GO:0005623: cell3.80E-02
32GO:0005778: peroxisomal membrane4.62E-02
33GO:0005759: mitochondrial matrix4.63E-02
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Gene type



Gene DE type