PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Information

Type: GO term
Identifier: GO:1901363
Description: heterocyclic compound binding

Cluster overview

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Amborella trichopoda	scaffold00002	3	CH_atr_337	20	31	0.000658923
Amborella trichopoda	scaffold00061	3	CH_atr_335	30	59	0.000632324
Amborella trichopoda	scaffold00061	6	CH_atr_87	30	59	0.000632324
Arabidopsis thaliana	5	4	CH_ath_36	98	237	0.00000117162
Arabidopsis thaliana	5	5	CH_ath_52	98	237	0.0000014741
Arabidopsis thaliana	2	6	CH_ath_151	85	206	0.000550656
Arabidopsis thaliana	5	6	CH_ath_86	106	261	0.0000295848
Brassica rapa	A09	5	CH_bra_30	47	97	0.000183437
Brassica rapa	A10	6	CH_bra_34	43	75	0.0000354403
Citrullus lanatus	Chr2	1	CH_cla_169	18	26	0.000319584
Citrullus lanatus	Chr2	2	CH_cla_213	30	58	0.000402759
Citrullus lanatus	Chr2	4	CH_cla_30	90	278	0.000108505
Citrullus lanatus	Chr2	5	CH_cla_33	93	278	0.0000878143
Citrullus lanatus	Chr10	6	CH_cla_52	58	135	0.000197937
Citrullus lanatus	Chr2	6	CH_cla_63	99	280	0.000555581
Citrullus lanatus	Chr2	6	CH_cla_53	33	60	0.000211428
Citrus sinensis	scaffold00167	2	CH_csi_111	13	13	0.0000794693
Citrus sinensis	scaffold00167	4	CH_csi_22	13	13	0.0000493314
Citrus sinensis	scaffold00167	5	CH_csi_25	13	13	0.0000794693
Citrus sinensis	scaffold00167	6	CH_csi_36	13	13	0.000340529
Cucumis melo	CM3.5_scaffold00067	5	CH_cme_39	75	234	0.000135057
Eucalyptus grandis	scaffold_8	1	CH_egr_571	21	29	0.000338738
Eucalyptus grandis	scaffold_6	2	CH_egr_475	25	32	0.00000151629
Eucalyptus grandis	scaffold_8	2	CH_egr_765	21	29	0.000590543
Eucalyptus grandis	scaffold_4	3	CH_egr_396	30	35	0.00000000772033
Eucalyptus grandis	scaffold_6	3	CH_egr_471	27	32	0.000000273619
Eucalyptus grandis	scaffold_7	3	CH_egr_772	16	17	0.000198626
Eucalyptus grandis	scaffold_6	5	CH_egr_205	25	32	0.00000151629
Eucalyptus grandis	scaffold_4	6	CH_egr_257	72	143	0.0000156569
Eucalyptus grandis	scaffold_4	6	CH_egr_180	31	36	0.00000000232803
Eucalyptus grandis	scaffold_6	6	CH_egr_219	27	32	0.000000273619
Glycine max	Gm10	6	CH_gma_75	105	235	0.0000112622
Gossypium raimondii	Chr03	2	CH_gra_269	30	48	0.00018358
Gossypium raimondii	Chr03	3	CH_gra_424	30	46	0.000827378
Gossypium raimondii	Chr03	4	CH_gra_73	40	76	0.000248514
Gossypium raimondii	Chr03	5	CH_gra_76	30	48	0.00018358
Gossypium raimondii	Chr03	6	CH_gra_96	51	96	0.000390335
Malus domestica	1	1	CH_mdo_126	30	67	0.0000465172
Malus domestica	1	2	CH_mdo_168	30	67	0.0000974357
Malus domestica	1	4	CH_mdo_9	89	294	0.0000000199224
Malus domestica	1	5	CH_mdo_10	89	294	0.000000111055
Malus domestica	1	6	CH_mdo_36	92	278	0.0000293855
Malus domestica	1	10	CH_mdo_1	56	258	0.00046226
Medicago truncatula	chr4	2	CH_mtr_576	26	61	0.000244539
Medicago truncatula	chr3	3	CH_mtr_669	28	55	0.000161574
Medicago truncatula	chr3	3	CH_mtr_705	30	62	0.000209811
Medicago truncatula	chr2	4	CH_mtr_117	47	140	0.0000011957
Medicago truncatula	chr3	4	CH_mtr_38	94	283	3.29034e-16
Medicago truncatula	chr2	5	CH_mtr_116	49	141	0.0000003915
Medicago truncatula	chr3	5	CH_mtr_45	95	283	0.00000000000000105852
Medicago truncatula	chr3	6	CH_mtr_220	28	55	0.000161574
Medicago truncatula	chr3	6	CH_mtr_61	110	283	0.00000000000000175826
Populus trichocarpa	Chr04	4	CH_ptr_97	60	135	0.0000457973
Populus trichocarpa	Chr04	5	CH_ptr_105	60	135	0.000177134
Prunus persica	scaffold_1	4	CH_ppe_116	99	265	0.000614396
Prunus persica	scaffold_7	4	CH_ppe_107	36	66	0.000379025
Prunus persica	scaffold_7	5	CH_ppe_128	36	66	0.000842401
Ricinus communis	29910	1	CH_rco_139	30	53	0.0000730444
Ricinus communis	29910	2	CH_rco_181	30	53	0.000183346
Ricinus communis	29910	4	CH_rco_26	31	55	0.0000462546
Ricinus communis	29910	5	CH_rco_28	31	55	0.000119446
Ricinus communis	29910	6	CH_rco_28	39	56	0.0000000155376
Solanum tuberosum	chr02	3	CH_stu_649	30	42	0.000213923
Solanum tuberosum	chr02	6	CH_stu_169	33	45	0.0000118964
Theobroma cacao	scaffold_5	4	CH_tca_62	42	84	0.0000635495
Theobroma cacao	scaffold_5	5	CH_tca_62	43	84	0.0000447689
Vitis vinifera	chr7	1	CH_vvi_290	28	51	0.000552093
Vitis vinifera	chr7	4	CH_vvi_102	28	51	0.000552093
Zea mays	10	5	CH_zma_31	86	252	0.0000666906
Zea mays	10	6	CH_zma_30	96	245	0.000011605

Available child term results

GO term	Description	Number of clusters
GO:0000049	tRNA binding	2
GO:0000166	nucleotide binding	38
GO:0000499	base pairing with mRNA	57
GO:0000774	adenyl-nucleotide exchange factor activity	4
GO:0000976	transcription regulatory region sequence-specific DNA binding	3
GO:0001164	RNA polymerase I CORE element sequence-specific DNA binding	1
GO:0003676	nucleic acid binding	73
GO:0003677	DNA binding	85
GO:0003684	damaged DNA binding	4
GO:0003689	DNA clamp loader activity	5
GO:0003723	RNA binding	22
GO:0003725	double-stranded RNA binding	5
GO:0003729	mRNA binding	1
GO:0003730	mRNA 3'-UTR binding	12
GO:0003746	translation elongation factor activity	47
GO:0003747	translation release factor activity	1
GO:0005524	ATP binding	54
GO:0005525	GTP binding	29
GO:0005542	folic acid binding	38
GO:0008097	5S rRNA binding	7
GO:0008143	poly(A) RNA binding	4
GO:0008312	7S RNA binding	1
GO:0008327	methyl-CpG binding	1
GO:0009374	biotin binding	2
GO:0010181	FMN binding	71
GO:0016149	translation release factor activity, codon specific	7
GO:0016168	chlorophyll binding	2
GO:0016208	AMP binding	3
GO:0017069	snRNA binding	9
GO:0017070	U6 snRNA binding	3
GO:0017076	purine nucleotide binding	9
GO:0019843	rRNA binding	12
GO:0020037	heme binding	272
GO:0030553	cGMP binding	3
GO:0030554	adenyl nucleotide binding	12
GO:0030619	U1 snRNA binding	4
GO:0030976	thiamine pyrophosphate binding	15
GO:0030983	mismatched DNA binding	1
GO:0032549	ribonucleoside binding	11
GO:0032553	ribonucleotide binding	14
GO:0032555	purine ribonucleotide binding	30
GO:0032559	adenyl ribonucleotide binding	76
GO:0035197	siRNA binding	3
GO:0035198	miRNA binding	4
GO:0035639	purine ribonucleoside triphosphate binding	18
GO:0043531	ADP binding	1129
GO:0043546	molybdopterin cofactor binding	9
GO:0043565	sequence-specific DNA binding	40
GO:0046906	tetrapyrrole binding	4
GO:0050660	flavin adenine dinucleotide binding	43
GO:0050661	NADP binding	7
GO:0051287	NAD binding	53
GO:0070401	NADP+ binding	25
GO:0070403	NAD+ binding	6
GO:0080084	5S rDNA binding	4
GO:0097100	supercoiled DNA binding	10
GO:0097157	pre-mRNA intronic binding	6

Functional clusters experiments

Exp id	Data type	Data filter	Min genes cluster	Max genes cluster	Max cluster size	E-value	Tandems removal
1	GO	Primary GO data only.	2	30	80	0.001	X
2	GO	Primary and orthology projected GO data.	2	30	80	0.001	X
3	GO	All GO data.	2	30	80	0.001	X
4	GO	Primary GO data only.	10	150	300	0.001	X
5	GO	Primary and orthology projected GO data.	10	150	300	0.001	X
6	GO	All GO data.	10	150	300	0.001	X
7	GO	Primary GO data only.	2	30	80	0.001	V
8	GO	Primary and orthology projected GO data.	2	30	80	0.001	V
9	GO	All GO data.	2	30	80	0.001	V
10	GO	Primary GO data only.	10	150	300	0.001	V
11	GO	Primary and orthology projected GO data.	10	150	300	0.001	V
12	GO	All GO data.	10	150	300	0.001	V
13	InterPro	No filter applied.	2	30	80	0.001	X
14	InterPro	No filter applied.	10	150	300	0.001	X
15	InterPro	No filter applied.	2	30	80	0.001	V
16	InterPro	No filter applied.	10	150	300	0.001	V
17	MapMan	No filter applied.	2	30	80	0.001	X
18	MapMan	No filter applied.	10	150	300	0.001	X
19	MapMan	No filter applied.	2	30	80	0.001	V
20	MapMan	No filter applied.	10	150	300	0.001	V