CoP: Co-expressed Biological Processes

Gene omics information

Query gene ID At5g36670

Gene name PHD finger family protein

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
0.76 87.4 At5g36670 833632 PHD finger family protein F:protein binding, DNA binding, zinc ion binding;P:regulation of transcription, DNA-dependent;C:nucleus;MOPFBV S.X. H.G.
0.80 89.8 At1g34460 840348 CYCB1 B1 type cyclin S.X. H.G.
0.71 84.2 At2g36200 818192 kinesin motor protein-related F:microtubule motor activity, ATP binding;P:microtubule-based movement;C:microtubule associated complex;MOFBPAV S.X. H.G.
0.69 82.9 At4g02060 828153 PRL (PROLIFERA) Member of the minichromosome maintenance complex, involved in DNA replication initiation. Abundant in proliferating and endocycling tissues. Localized in the nucleus during G1, S and G2 phases of the cell cycle, and are released into the cytoplasmic compartment during mitosis. Binds chromatin. S.X. H.G.
0.67 81.6 At2g29890 817539 VLN1 (VILLIN-LIKE 1) Encodes a ubiquitously expressed villin-like protein, whose mRNA may be alternatively processed. Villin belongs to a superfamily of actin binding proteins called the villin/gelsolin family. Animal villins are involved in actin binding. VLN1 protein co-localizes with actin filaments in several assays. VLN1 binds and bundles F-actin in a calcium-independent manner. It does not nucleate, cap or sever actin filaments and it stabilizes actin filaments, protecting them from ADF-mediated depolymerization. S.X. H.G.
0.67 81.6 At5g66750 836808 CHR1 (CHROMATIN REMODELING 1) Protein is similar to SWI2/SNF2 chromatin remodeling proteins. DDM1 is appears to act as a chromatin-remodeling ATPase involved in cytosine methylation in CG and non-CG contexts. Involved in gene silencing and maintenance of DNA methylation and histone methylation. Hypomethylation of many genomic regions occurs in ddm1 mutants, and can cause several phenotypic abnormalities, but some loci, such as BONSAI (At1g73177) can be hypermethylated in ddm1 mutants after several generations, leading to different phenotypes. DDM1 might be involved in establishing a heterochromain boundary. A line expressing an RNAi targeted against DDM1 shows some resistance to agrobacterium-mediated root transformation. S.X. H.G.
0.61 76.7 At3g49660 824128 transducin family protein / WD-40 repeat family protein F:nucleotide binding;P:G-protein coupled receptor protein signaling pathway;C:chloroplast, heterotrimeric G-protein complex;MFOPBAV S.X. H.G.
0.61 76.7 At1g16330 838202 CYCB3 core cell cycle genes S.X. H.G.
0.59 74.7 At2g31270 817684 CDT1A (ARABIDOPSIS HOMOLOG OF YEAST CDT1 A) Encodes a cyclin-dependent protein kinase. Involved in nuclear DNA replication and plastid division. Located in nucleus and chloroplast. S.X. H.G.
0.57 73.8 At2g35160 818083 SUVH5 (SU(VAR)3-9 HOMOLOG 5) Encodes SU(var)3-9 homologue 5 (SUVH5). SUVH5 has histone methyltransferase (MTase) activity in vitro and contributes to the maintenance of H3 mK9 (methylation of histone H3 at Lys-9) and CMT3-mediated non-CG methylation in vivo. This is a member of a subfamily of SET proteins that shares a conserved SRA domain. 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
229.4 100.0 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
209.8 100.0 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
205.4 100.0 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
193.6 100.0 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
187.9 100.0 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
187.6 100.0 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
186.6 100.0 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
175.2 100.0 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
170.1 100.0 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
168.5 100.0 GSM143301 Ts_genomic_hyb_2 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
0.97 0 5281 At5g36740 833643 PHD finger family protein F:protein binding, DNA binding, zinc ion binding;P:regulation of transcription, DNA-dependent;C:nucleus;MOPFBV C.G. S.X.
0.02 2e-6 56 At1g05380 837039 DNA binding F:DNA binding;P:regulation of transcription, DNA-dependent;C:nucleus;MPOFAB C.G. S.X.
0.01 5e-4 48 At3g14980 820727 PHD finger transcription factor, putative F:protein binding, DNA binding, zinc ion binding, N-acetyltransferase activity;P:regulation of transcription, DNA-dependent, metabolic process;C:nucleus;MPFOBA C.G. S.X.
0.02 1e-1 40 At4g14920 827150 DNA binding / protein binding / zinc ion binding F:protein binding, DNA binding, zinc ion binding;P:regulation of transcription, DNA-dependent;C:nucleus;MPFO C.G. S.X.
0.01 5e-1 38 At5g04860 830365 unknown protein F:unknown;P:biological_process unknown;C:mitochondrion;PFOMB C.G. S.X.
0.01 5e-1 38 At4g30130 829136 unknown protein F:molecular_function unknown;P:N-terminal protein myristoylation;C:cellular_component unknown;PMF C.G. S.X.
0.01 5e-1 38 At2g39340 818519 SAC3/GANP family protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFPBVA C.G. S.X.
0.01 5e-1 38 At2g10560 815517 unknown protein F:molecular_function unknown;P:unknown;C: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
0.01 1e-2 44 Glycine max GmaAffx.77379.2.S1_at BM527283 - - 4e-4 At1g05380 DNA binding C.G. S.X.
0.01 9e-1 36 Hordeum vulgare Contig10332_at Contig10332 - - 1e-11 At1g69390 ATMINE1 (Arabidopsis homologue of bacterial MinE 1) C.G. S.X.
0.02 4e-12 75 Oryza sativa Os03g0747600 AK106588.1 - GCN5-related N-acetyltransferase domain containingprotein 2e-12 At5g36670 PHD finger family protein C.G. S.X.
0.08 1e-14 83 Populus trichocarpa PtpAffx.205696.1.S1_at pmrna11249 hypothetical protein - 3e-15 At5g36740 PHD finger family protein C.G. S.X.
0.01 5e-1 38 Triticum aestivum Ta.20865.2.S1_at CA625736 - - 8e-2 At1g62840 unknown protein C.G. S.X.
0.01 1e-1 38 Vitis vinifera 1613831_at CD801016 hypothetical protein LOC100247537 - 1e-10 At4g37970 CAD6 (CINNAMYL ALCOHOL DEHYDROGENASE 6) C.G. S.X.
0.01 5e-2 40 Zea mays Zm.7617.1.S1_at AB127981.1 minE protein - 1e-7 At1g69390 ATMINE1 (Arabidopsis homologue of bacterial MinE 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
C GO:0006355 Any process that modulates the frequency, rate or extent of DNA-dependent transcription.
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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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