Functional clusters
Information
- Type Gene Ontology
- Description regulation of transcription by RNA polymerase II
Cluster overview
| Species | Chromosome | Experiment | Cluster id | Cluster size | Number of genes | E-value |
|---|---|---|---|---|---|---|
| Avicennia marina | ScioBoG_8578_HRSCAF_8617 | 3 | CH_ama_119 | 4 | 6 | 0.000788828 |
| Brassica carinata | ChrC06 | 3 | CH_bca_578 | 4 | 4 | 0.0000790988 |
| Beta vulgaris | Chr5_EL10_PGA_scaffold2 | 3 | CH_bvu_102 | 5 | 6 | 0.000000757713 |
| Capsicum annuum | PGAv.1.6.scaffold134 | 3 | CH_can_339 | 4 | 6 | 0.000145447 |
| Coffea canephora | chr5 | 3 | CH_ccan_341 | 4 | 43 | 0.00043445 |
| Citrus clementina | scaffold_2 | 3 | CH_ccl_218 | 5 | 7 | 0.00000284174 |
| Carpinus fangiana | Cfa03 | 3 | CH_cfa_315 | 4 | 7 | 0.00065168 |
| Citrullus lanatus | CG_Chr01 | 3 | CH_cla_39 | 5 | 5 | 0.0000000517906 |
| Chenopodium quinoa | C_Quinoa_Scaffold_3796 | 3 | CH_cqu_348 | 4 | 4 | 0.0000871165 |
| Eucalyptus grandis | Chr11 | 3 | CH_egr_638 | 4 | 4 | 0.0000278001 |
| Eucalyptus grandis | Chr05 | 3 | CH_egr_639 | 4 | 4 | 0.0000278001 |
| Fragaria x ananassa | Fvb7-1 | 3 | CH_fan_517 | 5 | 14 | 0.000631107 |
| Fragaria vesca | Fvb7 | 3 | CH_fve_352 | 5 | 17 | 0.000542871 |
| Magnolia biondii | Chr11 | 3 | CH_mbi_554 | 4 | 8 | 0.000296673 |
| Malus domestica | Chr01 | 3 | CH_mdo_357 | 6 | 21 | 0.0000174499 |
| Medicago truncatula | chr2 | 3 | CH_mtr_509 | 5 | 11 | 0.0000540103 |
| Olea europaea | chr1 | 3 | CH_oeu_36 | 7 | 12 | 0.00000000124978 |
| Pisum sativum | chr5LG3 | 3 | CH_psa_204 | 5 | 11 | 0.0000352912 |
| Quercus lobata | 12 | 3 | CH_qlo_309 | 6 | 6 | 0.00000000167514 |
| Rosa chinensis | RcHm_v2.0_Chr1 | 3 | CH_rch_387 | 7 | 30 | 0.00000340917 |
| Rhododendron simsii | chr03 | 3 | CH_rsi_305 | 4 | 4 | 0.0000113227 |
| Salvia bowleyana | GWHASIU00000008 | 3 | CH_sbo_40 | 12 | 31 | 7.09678e-19 |
| Sequoiadendron giganteum | chr8 | 3 | CH_sgi_263 | 7 | 7 | 0.000000000000391385 |
| Sequoiadendron giganteum | chr8 | 3 | CH_sgi_388 | 10 | 49 | 0.000000000130203 |
| Sapria himalayana | scaffold3_21451142 | 3 | CH_shi_86 | 4 | 4 | 0.000000933225 |
| Solanum lycopersicum | SL4.0ch10 | 3 | CH_sly_254 | 6 | 7 | 0.00000486219 |
| Schrenkiella parvula | ch6-6 | 3 | CH_spa_83 | 6 | 14 | 0.00000690168 |
| Theobroma cacao | Chromosome_3 | 3 | CH_tca_345 | 5 | 15 | 0.000342772 |
| Tripterygium wilfordii | NC_052237.1 | 3 | CH_twi_314 | 4 | 6 | 0.000621335 |
| Vitis vinifera | chr16 | 3 | CH_vvi_291 | 5 | 13 | 0.000108371 |
| Zea mays | 3 | 3 | CH_zma_205 | 5 | 5 | 0.0000649096 |
| Avicennia marina | ScioBoG_8578_HRSCAF_8617 | 4 | CH_ama_119 | 4 | 6 | 0.000788828 |
| Brassica carinata | ChrC06 | 4 | CH_bca_578 | 4 | 4 | 0.0000790988 |
| Beta vulgaris | Chr5_EL10_PGA_scaffold2 | 4 | CH_bvu_102 | 5 | 6 | 0.000000757713 |
| Capsicum annuum | PGAv.1.6.scaffold134 | 4 | CH_can_339 | 4 | 6 | 0.000145447 |
| Coffea canephora | chr5 | 4 | CH_ccan_341 | 4 | 43 | 0.00043445 |
| Citrus clementina | scaffold_2 | 4 | CH_ccl_218 | 5 | 7 | 0.00000284174 |
| Carpinus fangiana | Cfa03 | 4 | CH_cfa_315 | 4 | 7 | 0.00065168 |
| Citrullus lanatus | CG_Chr01 | 4 | CH_cla_39 | 5 | 5 | 0.0000000517906 |
| Chenopodium quinoa | C_Quinoa_Scaffold_3796 | 4 | CH_cqu_348 | 4 | 4 | 0.0000871165 |
| Eucalyptus grandis | Chr11 | 4 | CH_egr_638 | 4 | 4 | 0.0000278001 |
| Eucalyptus grandis | Chr05 | 4 | CH_egr_639 | 4 | 4 | 0.0000278001 |
| Fragaria x ananassa | Fvb7-1 | 4 | CH_fan_517 | 5 | 14 | 0.000631107 |
| Fragaria vesca | Fvb7 | 4 | CH_fve_352 | 5 | 17 | 0.000542871 |
| Magnolia biondii | Chr11 | 4 | CH_mbi_554 | 4 | 8 | 0.000296673 |
| Malus domestica | Chr01 | 4 | CH_mdo_357 | 6 | 21 | 0.0000174499 |
| Medicago truncatula | chr2 | 4 | CH_mtr_509 | 5 | 11 | 0.0000540103 |
| Olea europaea | chr1 | 4 | CH_oeu_36 | 7 | 12 | 0.00000000124978 |
| Pisum sativum | chr5LG3 | 4 | CH_psa_204 | 5 | 11 | 0.0000352912 |
| Quercus lobata | 12 | 4 | CH_qlo_309 | 6 | 6 | 0.00000000167514 |
| Rosa chinensis | RcHm_v2.0_Chr1 | 4 | CH_rch_387 | 7 | 30 | 0.00000340917 |
| Rhododendron simsii | chr03 | 4 | CH_rsi_305 | 4 | 4 | 0.0000113227 |
| Salvia bowleyana | GWHASIU00000008 | 4 | CH_sbo_40 | 12 | 31 | 7.09678e-19 |
| Sequoiadendron giganteum | chr8 | 4 | CH_sgi_263 | 7 | 7 | 0.000000000000391385 |
| Sequoiadendron giganteum | chr8 | 4 | CH_sgi_388 | 10 | 49 | 0.000000000130203 |
| Sapria himalayana | scaffold3_21451142 | 4 | CH_shi_86 | 4 | 4 | 0.000000933225 |
| Solanum lycopersicum | SL4.0ch10 | 4 | CH_sly_254 | 6 | 7 | 0.00000486219 |
| Schrenkiella parvula | ch6-6 | 4 | CH_spa_83 | 6 | 14 | 0.00000690168 |
| Theobroma cacao | Chromosome_3 | 4 | CH_tca_345 | 5 | 15 | 0.000342772 |
| Tripterygium wilfordii | NC_052237.1 | 4 | CH_twi_314 | 4 | 6 | 0.000621335 |
| Vitis vinifera | chr16 | 4 | CH_vvi_291 | 5 | 13 | 0.000108371 |
| Zea mays | 3 | 4 | CH_zma_205 | 5 | 5 | 0.0000649096 |
Available child term results
| Ontology identifier | Description | Number of clusters |
|---|---|---|
| GO:0000122 | negative regulation of transcription by RNA polymerase II | 14 |
| GO:0006990 | positive regulation of transcription from RNA polymerase II promoter involved in unfolded protein response | 6 |
| GO:0010767 | regulation of transcription from RNA polymerase II promoter in response to UV-induced DNA damage | 4 |
| GO:0032968 | positive regulation of transcription elongation from RNA polymerase II promoter | 32 |
| GO:0043619 | regulation of transcription from RNA polymerase II promoter in response to oxidative stress | 6 |
| GO:0045944 | positive regulation of transcription by RNA polymerase II | 34 |
| GO:0060261 | positive regulation of transcription initiation from RNA polymerase II promoter | 16 |
| GO:0070940 | dephosphorylation of RNA polymerase II C-terminal domain | 50 |
| GO:1901407 | regulation of phosphorylation of RNA polymerase II C-terminal domain | 2 |
Functional Clusters Experiments
| Exp id | Data type | Data filter | Min genes cluster | Max genes cluster | Max cluster size | E-value | Tandems removal |
|---|---|---|---|---|---|---|---|
| 1 | MapMan | No filter applied. | 2 | 30 | 80 | 0.001 | |
| 2 | MapMan | No filter applied. | 2 | 30 | 80 | 0.001 | |
| 3 | GO | All GO data. | 2 | 30 | 80 | 0.001 | |
| 4 | GO | All GO data. | 2 | 30 | 80 | 0.001 | |
| 5 | InterPro | No filter applied. | 2 | 30 | 80 | 0.001 | |
| 6 | InterPro | No filter applied. | 2 | 30 | 80 | 0.001 |