CoP: Co-expressed Biological Processes

Gene omics information

Query gene ID At5g52910

Gene name ATIM (TIMELESS)

Organism Arabidopsis thaliana

Co-expressed genes

As this page just shows up to 10 genes to the query, if you wish to have the complete list of co-expressed genes, click Gene/Probe ID.

VF %ile Gene/Probe ID Repr.ID Gene Name Functional Description S.X. H.G. Other DB
0.31 33.8 At5g52910 835368 ATIM (TIMELESS) homolog of Drosophila timeless S.X. H.G.
0.60 75.7 At4g18470 827577 SNI1 Negative regulator of systemic acquired resistance (SAR), repressor of pathogenesis-related PR gene expression which is removed by NPR1 upon induction of SAR. Encodes leucine-rich nuclear protein. Conserved in plants, with putative orthologs found in several plant species. Many NPR1-dependent PR gene are specifically derepressed in the sni1 mutant. The structural similarity of SNI1 to Armadillo repeat proteins implies that SNI1 may form a scaffold for interaction with proteins that modulate transcription. Histone modification may be involved in SNI1-mediated repression of PR genes. S.X. H.G.
0.41 52.4 At3g60660 825237 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPO S.X. H.G.
0.36 43.6 At1g27880 839681 ATP-dependent DNA helicase, putative F:helicase activity, nucleic acid binding, ATP-dependent helicase activity, ATP binding;P:DNA recombination;C:cellular_component unknown;BOMFPVA S.X. H.G.
0.26 24.4 At5g67100 836845 ICU2 (INCURVATA2) Encodes the putative catalytic subunit of the DNA polymerase alpha. Interacts with genes involved in chromatin-mediated cellular memory. ICU2 genetically interacts with TERMINAL FLOWER2, the ortholog of HETEROCHROMATIN PROTEIN1 of animals and yeasts, and with the Polycomb group (PcG) gene CURLY LEAF. A number of regulatory genes were derepressed in the icu2-1 mutant, including genes associated with flowering time, floral meristem, and floral organ identity. Mutant has curled, involute leaves and causes early flowering. S.X. H.G.
0.20 14.4 At1g65470 842858 FAS1 (FASCIATA 1) Chromatin Assembly Factor-1 (CAF-1) p150 subunit. Mutants have reduced heterochromatin content. In Arabidopsis, the three CAF-1 subunits are encoded by FAS1, FAS2 and, most likely, MSI1, respectively. Mutations in FAS1 or FAS2 lead to increased frequency of homologous recombination and T-DNA integration in Arabidopsis. S.X. H.G.
0.15 7.8 At1g78770 844213 cell division cycle family protein F:binding;P:cell cycle;C:cellular_component unknown;BOMAFP S.X. H.G.
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Specifically expressed experiments

As this page just shows up to 10 assays to the query, if you wish to have the complete list of assays that the query gene/probe was specifically expressed, click here.
Std2 GX %ile GSM ID Assay Name GSE ID Experiment Title
196.8 100.0 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
87.9 99.9 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
81.8 99.9 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
78.4 99.9 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
74.3 99.9 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
71.7 99.9 GSM184556 Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
68.2 99.9 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
67.8 99.9 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
66.7 99.8 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
66.0 99.8 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
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Homologous genes

Paralogous genes

Click Gene ID to show a list of homologous genes.

HF Ev BS Gene ID Repr. ID Gene Name Functional description C.G. S.X. Other DB
0.01 4e-1 38 At5g02880 831758 UPL4 encodes a ubiquitin-protein ligase containing a HECT domain. There are six other HECT-domain UPLs in Arabidopsis. C.G. S.X.
0.01 4e-1 38 At5g23960 832461 TPS21 (TERPENE SYNTHASE 21) Encodes a sesquiterpene synthase involved in generating all of the group A sesquiterpenes found in the Arabidopsis floral volatile blend. Strongly expressed in the stigma. C.G. S.X.
0.01 4e-1 38 At3g10845 820254 RNA recognition motif (RRM)-containing protein F:RNA binding, nucleotide binding, nucleic acid binding;P:unknown;C:unknown;MPFOB C.G. S.X.
0.01 4e-1 38 At3g17609 821027 HYH (HY5-HOMOLOG) F:transcription factor activity, DNA binding;P:response to UV-B, anthocyanin metabolic process, regulation of transcription, DNA-dependent;C:nucleus;MPFO C.G. S.X.
0.01 4e-1 38 At2g14540 815941 serpin family protein / serine protease inhibitor family protein F:serine-type endopeptidase inhibitor activity;P:biological_process unknown;C:cellular_component unknown;MVPBOAF C.G. S.X.
0.01 4e-1 38 At1g01770 837323 unknown protein F:unknown;P:biological_process unknown;C:cellular_component unknown;OBFMP C.G. S.X.
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Orthologous genes

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HF Ev BS Species Gene ID Repr. ID Gene Name Functional description Ev AGI code Arabidopsis gene name C.G. S.X. Other DB
0.01 2e+0 36 Glycine max GmaAffx.88364.1.A1_at AI507797 - - 3e+0 At5g46840 RNA recognition motif (RRM)-containing protein C.G. S.X.
0.01 3e+0 34 Hordeum vulgare Contig25813_at Contig25813 - - 2e+0 At5g17280 unknown protein C.G. S.X.
0.01 9e-1 38 Oryza sativa OsAffx.19944.1.S1_at - - - 0 C.G. S.X.
0.08 7e-13 77 Populus trichocarpa PtpAffx.218294.1.S1_at pmrna33855 hypothetical protein - 6e-13 At5g52910 ATIM (TIMELESS) C.G. S.X.
0.01 5e-1 38 Triticum aestivum Ta.6324.2.S1_a_at BJ302198 - - 1e+0 At2g21385 unknown protein C.G. S.X.
0.01 1e-1 38 Vitis vinifera 1621122_at CB834211 - - 4e-10 Atmg00300 - C.G. S.X.
0.01 7e-1 36 Zea mays Zm.6132.1.A1_at AI670659 hypothetical protein LOC100191258 - 4e-1 At4g00620 tetrahydrofolate dehydrogenase/cyclohydrolase, putative C.G. S.X.
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Biological processes

Click GO ID to show a list of genes that are associated with the GO ID.

ECC GO ID Process Name
N GO:0042752 Any process that modulates the frequency, rate or extent of a circadian rhythm. A circadian rhythm is a biological process in an organism that recurs with a regularity of approximately 24 hours.
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Metabolic pathways

Click KaPPA-View ID to show a list of genes that are assigned to the KaPPA-View ID.

KaPPA-View ID Link to Kappa-View Pathway Name

Click KEGG PATHWAY ID to show a list of genes that are assigned to the KEGG PATHWAY ID.

KEGG PATHWAY ID Link to KEGG PATHWAY Pathway Name
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