PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Information

Type: GO term
Identifier: GO:0008033
Description: tRNA processing

Cluster overview

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Eucalyptus grandis	scaffold_3	1	CH_egr_77	9	13	5.06732e-18
Gossypium raimondii	Chr01	3	CH_gra_218	4	5	0.000020045
Medicago truncatula	chr3	1	CH_mtr_148	8	75	0.00000000121161
Medicago truncatula	chr6	1	CH_mtr_564	3	5	0.000771598
Medicago truncatula	chr3	2	CH_mtr_204	8	75	0.00000000811503
Medicago truncatula	chr3	3	CH_mtr_293	8	75	0.0000000346583
Medicago truncatula	chr6	3	CH_mtr_718	3	3	0.000264654
Medicago truncatula	chr7	3	CH_mtr_719	3	3	0.000264654
Medicago truncatula	chr7	3	CH_mtr_786	5	41	0.000458908
Medicago truncatula	chr7	9	CH_mtr_16	3	3	0.000115484
Solanum lycopersicum	ch08	1	CH_sly_14	12	12	2.86905e-26
Solanum lycopersicum	ch11	1	CH_sly_7	15	15	6.98495e-34
Solanum lycopersicum	ch11	1	CH_sly_46	11	30	5.03356e-16
Solanum lycopersicum	ch11	1	CH_sly_12	20	74	5.9741e-29
Solanum lycopersicum	ch08	2	CH_sly_15	12	12	1.49709e-25
Solanum lycopersicum	ch11	2	CH_sly_12	20	74	1.01553e-27
Solanum lycopersicum	ch11	2	CH_sly_7	15	15	5.66602e-33
Solanum lycopersicum	ch11	2	CH_sly_55	11	30	0.00000000000000225524
Solanum lycopersicum	ch08	3	CH_sly_22	12	12	2.88758e-25
Solanum lycopersicum	ch11	3	CH_sly_18	20	74	3.11686e-27
Solanum lycopersicum	ch11	3	CH_sly_9	15	15	1.30099e-32
Solanum lycopersicum	ch11	3	CH_sly_71	11	30	0.00000000000000409384
Solanum lycopersicum	ch08	4	CH_sly_14	12	12	2.86905e-26
Solanum lycopersicum	ch11	4	CH_sly_5	26	97	9.01173e-39
Solanum lycopersicum	ch11	4	CH_sly_12	20	74	5.9741e-29
Solanum lycopersicum	ch08	5	CH_sly_15	12	12	1.49709e-25
Solanum lycopersicum	ch11	5	CH_sly_12	20	74	1.01553e-27
Solanum lycopersicum	ch11	5	CH_sly_4	26	97	3.99836e-37
Solanum lycopersicum	ch08	6	CH_sly_22	12	12	2.88758e-25
Solanum lycopersicum	ch11	6	CH_sly_6	26	97	1.78584e-36
Solanum lycopersicum	ch11	6	CH_sly_18	20	74	3.11686e-27
Solanum tuberosum	chr04	1	CH_stu_259	4	4	0.000000968319
Solanum tuberosum	chr10	1	CH_stu_114	6	6	0.0000000000047134
Solanum tuberosum	chr10	1	CH_stu_258	4	4	0.000000968319
Solanum tuberosum	chr04	2	CH_stu_292	4	4	0.00000217088
Solanum tuberosum	chr10	2	CH_stu_291	4	4	0.00000217088
Solanum tuberosum	chr10	2	CH_stu_142	6	6	0.0000000000160458
Solanum tuberosum	chr04	3	CH_stu_439	4	4	0.00000396407
Solanum tuberosum	chr10	3	CH_stu_438	4	4	0.00000396407
Solanum tuberosum	chr10	3	CH_stu_196	6	6	0.0000000000399405

Available child term results

GO term	Description	Number of clusters
GO:0001682	tRNA 5'-leader removal	4
GO:0002098	tRNA wobble uridine modification	1
GO:0006388	tRNA splicing, via endonucleolytic cleavage and ligation	3
GO:0008616	queuosine biosynthetic process	8
GO:0034227	tRNA thio-modification	4
GO:0042779	tRNA 3'-trailer cleavage	1
GO:0070526	threonylcarbamoyladenosine biosynthetic process	2

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