CoP: Co-expressed Biological Processes

Gene omics information

Query gene ID At5g47080

Gene name CKB1

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
1.00 100.0 At5g47080 834754 CKB1 Regulatory subunit beta of casein kinase II. purified CKB1 resulted in up 100-fold stimulation of casein kinase activity compared with the CKA1 activity alone. Forms a tetrameric complex with CKA1 (CKA1(2)CKB1(2)). S.X. H.G.
0.43 55.3 At2g32600 817820 hydroxyproline-rich glycoprotein family protein F:zinc ion binding, nucleic acid binding;P:biological_process unknown;C:nucleus, intracellular, spliceosome;MPOFBVA S.X. H.G.
0.39 48.4 At1g49590 841383 formin-binding protein-related F:zinc ion binding, nucleic acid binding;P:biological_process unknown;C:nucleus;MPFO S.X. H.G.
0.36 43.6 At5g50320 835098 ELO3 (ELONGATA 3) A subunit of Elongator, a histone acetyl transferase complex, consisting of six subunits (ELP1–ELP6), that copurifies with the elongating RNAPII in yeast and humans. Three Arabidopsis thaliana genes, encoding homologs of the yeast Elongator subunits ELP1, ELP3 (histone acetyl transferase), and ELP4 are responsible for the narrow leaf phenotype in elongata mutants and for reduced root growth that results from a decreased cell division rate. Two lines with RNAi constructs directed against HAG3 grow normally and can produce root calli, but have defects in agrobacterium-mediated transformation. S.X. H.G.
0.36 43.6 At4g00830 827998 RNA recognition motif (RRM)-containing protein F:RNA binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MOFPBVA S.X. H.G.
0.36 43.6 At3g60250 825196 CKB3 Regulatory (beta) subunit of the protein kinase CK2. Involved in regulation of the circadian clock in Arabidopsis S.X. H.G.
0.33 38.1 At1g14510 838013 AL7 (ALFIN-LIKE 7) AL7 encodes a member of the Alfin-Like family of nuclear-localized PhD domain containing homeodomain proteins. Binds to H3K4 di or trimethylated DNA. S.X. H.G.
0.32 35.7 At5g06140 830501 SNX1 (SORTING NEXIN 1) Homolog of yeast retromer subunit VPS5. Part of a retromer-like protein complex involved in endosome to lysosome protein transport. In roots it co-localizes with the PIN2 auxin efflux carrier. Involved in endocytic sorting of membrane proteins including PIN2, BOR1 and BRI1. S.X. H.G.
0.32 35.7 At3g05530 819718 RPT5A (REGULATORY PARTICLE TRIPLE-A ATPASE 5A) Encodes RPT5a (Regulatory Particle 5a), one of the six AAA-ATPases of the proteasome regulatory particle. Essential for gametophyte development. In Arabidopsis, the RPT5 subunit is encoded by two highly homologous genes, RPT5a and RPT5b. RPT5a and RPT5b show accession-dependent functional redundancy. In Wassilewskija (Ws) accession: mutant alleles of RPT5a displayed 50% pollen lethality, indicating that RPT5a is essential for male gametophyte development. In the Columbia (Col) accession, a rpt5a mutant allele did not display such a phenotype because the RPT5b Col allele complements the rpt5a defect in the male gametophyte, whereas the RPT5b Ws allele does not. Double rpt5a rpt5b mutants in Col background showed a complete male and female gametophyte lethal phenotype. S.X. H.G.
0.31 33.8 At3g59990 825169 MAP2B (METHIONINE AMINOPEPTIDASE 2B) Encodes a MAP2 like methionine aminopeptidase 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
59.5 99.8 GSM133304 RIKEN-NAKABAYASHI1B GSE5700 AtGenExpress: Effect of ABA during seed imbibition
26.0 99.7 GSM133303 RIKEN-NAKABAYASHI1A GSE5700 AtGenExpress: Effect of ABA during seed imbibition
15.4 99.5 GSM133945 Murray_2-1_T0-APH_Rep1_ATH1 GSE5747 Genome-wide cell cycle studies
15.3 99.4 GSM142902 WW001_ATH1_A1-WILLA-CON GSE6181 Assembly of the cell wall pectic matrix.
15.1 99.4 GSM133117 RIKEN-YAMAUCHI1A GSE5687 AtGenExpress: Different temperature treatment of seeds
14.5 99.4 E-ATMX-31-raw-cel-1516947984
14.0 99.4 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
13.8 99.4 E-MEXP-739-raw-cel-1099467384
13.2 99.4 GSM133310 RIKEN-NAKABAYASHI5B GSE5700 AtGenExpress: Effect of ABA during seed imbibition
12.9 99.3 GSM133309 RIKEN-NAKABAYASHI4B GSE5700 AtGenExpress: Effect of ABA during seed imbibition
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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
0.63 6e-173 607 At4g17640 827484 CKB2 Encodes casein kinase II beta (regulatory) subunit. C.G. S.X.
0.48 1e-50 200 At2g44680 819076 CKB4 (CASEIN KINASE II BETA SUBUNIT 4) Encodes casein kinase II beta chain, a CK2 regulatory subunit. Nuclear-localized CKB4 protein exists in vivo as different isoforms, resulting from phosphorylation on serine residues. The phosphorylated isoforms are the preferred substrate for ubiquitination and degradation by the proteasome pathway. Involved in regulation of circadian clock. C.G. S.X.
0.50 4e-38 159 At3g60250 825196 CKB3 Regulatory (beta) subunit of the protein kinase CK2. Involved in regulation of the circadian clock in Arabidopsis C.G. S.X.
0.01 2e-3 44 At1g35530 840448 DEAD/DEAH box helicase, putative F:in 6 functions;P:unknown;C:cellular_component unknown;BOMFPAV C.G. S.X.
0.05 2e-3 44 At1g36020 840505 - 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
0.46 3e-58 226 Glycine max Gma.5686.1.S1_at CA935460 - - 3e-58 At5g47080 CKB1 C.G. S.X.
0.38 9e-44 176 Hordeum vulgare Contig9028_at Contig9028 - - 5e-45 At2g44680 CKB4 (CASEIN KINASE II BETA SUBUNIT 4) C.G. S.X.
0.37 4e-83 309 Oryza sativa Os07g0495100 AK121850.1 - Possible protein kinase CK2 regulatory subunit(Fragment) 4e-83 At5g47080 CKB1 C.G. S.X.
0.51 1e-88 327 Populus trichocarpa PtpAffx.34708.1.S1_s_at CV283287 hypothetical protein - 1e-88 At5g47080 CKB1 C.G. S.X.
0.41 1e-78 293 Triticum aestivum Ta.10124.1.S1_at BJ218430 - - 2e-78 At5g47080 CKB1 C.G. S.X.
0.41 3e-45 180 Vitis vinifera 1612977_at CF204464.1 hypothetical protein LOC100266745 - 5e-53 At3g60250 CKB3 C.G. S.X.
0.38 6e-57 220 Zea mays Zm.1906.1.S1_at AF239818.1 protein kinase CK2 regulatory subunit CK2B3 - 4e-33 At3g60250 CKB3 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:0006468 The process of introducing a phosphate group on to a protein.
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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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