CoP: Co-expressed Biological Processes

Gene omics information

Query gene ID At3g63520

Gene name CCD1 (CAROTENOID CLEAVAGE DIOXYGENASE 1)

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
0.74 86.1 At3g63520 825527 CCD1 (CAROTENOID CLEAVAGE DIOXYGENASE 1) Encodes a protein with 9-cis-epoxycarotenoid dioxygenase activity. The enzyme was shown to act on a variety of carotenoid including β-carotene, lutein, zeaxanthin, and all-trans-violaxanthin. When those compounds are used as substrates, the major reaction product detected is a C14 dialdehyde: 4,9-dimethyldodeca-2,4,6,8,10-pentaene-1,12-dial. The enzyme did not cleave as efficiently carotenoids containing 9-cis-double or allenic bonds. S.X. H.G.
0.64 78.9 At2g03390 814868 uvrB/uvrC motif-containing protein F:DNA binding, nuclease activity;P:nucleotide-excision repair;C:chloroplast;OBMFP S.X. H.G.
0.63 78.1 At5g42390 834245 metalloendopeptidase F:metalloendopeptidase activity, zinc ion binding, catalytic activity, metal ion binding;P:proteolysis;C:mitochondrion, chloroplast stroma, chloroplast;BOMFPAV S.X. H.G.
0.62 77.3 At4g14210 827061 PDS3 (PHYTOENE DESATURASE 3) Encodes phytoene desaturase (phytoene dehydrogenase), an enzyme that catalyzes the desaturation of phytoene to zeta-carotene during carotenoid biosynthesis. Processed protein is localized to the plastid. S.X. H.G.
0.61 76.7 At3g10970 820268 haloacid dehalogenase-like hydrolase family protein F:hydrolase activity, catalytic activity;P:metabolic process;C:chloroplast;BOPAMF S.X. H.G.
0.61 76.7 At5g50920 835165 CLPC1 Encodes a protein that is similar to ATP-dependent Clp protease ATP-binding subunit / ClpC. Involved in protein import into the chloroplast. May provide ATP source that drives the TIC (Translocon at the Inner envelope membrane of Chloroplasts) translocation machinery. S.X. H.G.
0.59 74.7 At1g49970 841420 CLPR1 Encodes a ClpP-related sequence. Though similar to ClpP proteins, this does not contains the highly conserved catalytic triad of Ser-type proteases (Ser-His-Asp). The name reflects nomenclature described in Adam et. al (2001). S.X. H.G.
0.56 73.0 At5g03900 831927 - F:molecular_function unknown;P:biological_process unknown;C:chloroplast envelope;BPO S.X. H.G.
0.55 70.6 At1g67840 843110 CSK (CHLOROPLAST SENSOR KINASE) Encodes a chloroplast sensor kinase (CSK) that shares common ancestors with cyanobacterial histidine sensor kinases. CSK is synthesised in the cytosol and imported into the chloroplast as a protein precusor. CSK is autophosphorylated and required for control of transcription of chloroplast genes by the redox state of an electron carrier connecting photosystems I and II. S.X. H.G.
0.54 69.5 At5g03910 830269 ATATH12 member of ATH subfamily 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
15.1 99.4 GSM38670 DSNP GSE2268 Arabidopsis polysome microarray
10.4 99.2 GSM131103 Broadley_1-1_A1-Bo+P-nutrient-replete_Rep1_ATH1 GSE5614 Changes in Gene Expression in Brassica oleracea Shoots during Phosphate Starvation (Cross-species study)
10.1 99.2 GSM38668 NSNP GSE2268 Arabidopsis polysome microarray
9.6 99.1 GSM131604 ATGE_41_B GSE5632 AtGenExpress: Developmental series (flowers and pollen)
9.2 99.1 E-ATMX-32-raw-cel-1562974595
9.1 99.1 E-ATMX-32-raw-cel-1562974681
9.0 99.1 GSM131603 ATGE_41_A GSE5632 AtGenExpress: Developmental series (flowers and pollen)
8.6 99.0 GSM131303 AtGen_6-2611_Osmoticstress-Shoots-24.0h_Rep1 GSE5622 AtGenExpress: Stress Treatments (Osmotic stress)
8.3 99.0 GSM131587 ATGE_34_C GSE5632 AtGenExpress: Developmental series (flowers and pollen)
7.8 98.9 GSM131605 ATGE_41_C GSE5632 AtGenExpress: Developmental series (flowers and pollen)
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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
0.02 1e-2 42 At1g30475 2745766 - F:molecular_function unknown;P:biological_process unknown;C:unknown;MPBO C.G. S.X.
0.03 5e-2 40 At2g45920 819200 U-box domain-containing protein F:ubiquitin-protein ligase activity;P:protein ubiquitination;C:ubiquitin ligase complex;POMFBAV C.G. S.X.
0.01 2e-1 38 At2g41960 818796 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFPBVA C.G. S.X.
0.02 8e-1 36 At4g03520 825653 ATHM2 chloroplast localized thioredoxin, similar to prokaryotic types. C.G. S.X.
0.01 8e-1 36 At3g51950 824358 zinc finger (CCCH-type) family protein / RNA recognition motif (RRM)-containing protein F:RNA binding, zinc ion binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;PMFO C.G. S.X.
0.01 8e-1 36 At3g28030 822427 UVH3 (ULTRAVIOLET HYPERSENSITIVE 3) Required for repair of pyrimidine-pyrimidinone (6-4) dimers. C.G. S.X.
0.01 8e-1 36 At2g33410 817905 heterogeneous nuclear ribonucleoprotein, putative / hnRNP, putative F:RNA binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MBOPFVA C.G. S.X.
0.02 3e+0 34 At5g55010 835592 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P C.G. S.X.
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Orthologous genes

Click Gene ID to show a list of orthologous genes.

HF Ev BS Species Gene ID Repr. ID Gene Name Functional description Ev AGI code Arabidopsis gene name C.G. S.X. Other DB
0.41 5e-83 309 Glycine max Gma.17715.1.S1_at BI970432 - - 5e-95 At3g63520 CCD1 (CAROTENOID CLEAVAGE DIOXYGENASE 1) C.G. S.X.
0.14 5e-13 75 Hordeum vulgare rbaak32b03_s_at rbaak32b03 - - 4e-13 At3g63520 CCD1 (CAROTENOID CLEAVAGE DIOXYGENASE 1) C.G. S.X.
0.26 6e-28 127 Oryza sativa Os.10598.1.S1_at - - - 0 C.G. S.X.
0.43 1e-46 188 Populus trichocarpa PtpAffx.200858.1.S1_x_at pmrna1674 hypothetical protein - 4e-31 At3g63520 CCD1 (CAROTENOID CLEAVAGE DIOXYGENASE 1) C.G. S.X.
0.38 3e-16 87 Triticum aestivum Ta.26946.1.S1_at CD491394 - - 2e-16 At3g63520 CCD1 (CAROTENOID CLEAVAGE DIOXYGENASE 1) C.G. S.X.
0.44 4e-145 513 Vitis vinifera 1610743_s_at BQ796944 9,10[9',10']carotenoid cleavage dioxygenase - 2e-147 At3g63520 CCD1 (CAROTENOID CLEAVAGE DIOXYGENASE 1) C.G. S.X.
0.39 2e-15 83 Zea mays Zm.742.1.A1_at CF920015 carotenoid cleavage dioxygenase - 5e-15 At3g63520 CCD1 (CAROTENOID CLEAVAGE DIOXYGENASE 1) 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
X GO:0016121 The chemical reactions and pathways resulting in the breakdown of carotenes, hydrocarbon carotenoids.
X GO:0016124 The chemical reactions and pathways resulting in the breakdown of xanthophylls, oxygen-containing carotenoids.
X GO:0009414 A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a water deprivation stimulus, prolonged deprivation of water.
X GO:0016118 The chemical reactions and pathways resulting in the breakdown of carotenoids, tetraterpenoid compounds in which two units of 4 isoprenoid residues joined head-to-tail are themselves joined tail-to-tail.
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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
00063 Carotenoid and abscisic acid biosynthesis

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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