CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Os09g0541900

Gene name
Homology with Arabidopsis Similar to At1g20200: EMB2719 (EMBRYO DEFECTIVE 2719) (HF=1e-24)

Module size 6 genes

NF 0.59

%ile 80.3

Co-expressed genes

Click gene/probe ID to show a list of genes that are co-expressed with the gene.

VF %ile CC Gene ID Repr. ID Gene name Func. Ev AGI code Arabidopsis gene name O.I. H.G. S.X. Other DB
0.71 89.6 0.97 Os09g0541900 AB031299.1 - Proteasome component region PCI domain containingprotein 1e-24 At1g20200 EMB2719 (EMBRYO DEFECTIVE 2719) O.I. H.G. S.X.
0.73 91.1 0.98 Os05g0301500 AK067027.1 - Ribophorin I (Fragment) 7e-5 At1g76400 ribophorin I family protein O.I. H.G. S.X.
0.67 87.2 0.98 Os07g0209000 AK058399.1 - Dolichyl-di-phosphooligosaccharide-proteinglycotransferase (Oligosaccharyltransferase)-like 1e-24 At5g66680 DGL1 O.I. H.G. S.X.
0.67 87.2 0.98 Os05g0147400 AK062146.1 - T-complex protein 1, zeta subunit (TCP-1-zeta)(CCT-zeta) (CCT-zeta- 1) 6e-67 At5g16070 chaperonin, putative O.I. H.G. S.X.
0.44 58.1 0.98 Os06g0538000 AK069949.1 - Chaperonin Cpn60/TCP-1 family protein 5e-83 At5g26360 chaperonin, putative O.I. H.G. S.X.
0.32 36.3 0.97 Os01g0911200 AK101333.1 - Ribophorin II family protein 1e-6 At4g21150 HAP6 (HAPLESS 6) O.I. H.G. S.X.

Click More genes

Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
15.9 98.7 GSM422676 Control GSE16865 Heterologous microarrays for the study of drought stress in Musa
8.2 97.7 GSM377073 Genomic DNA - 45 day old leaf sample - mutant d2943 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
7.7 97.6 GSM377085 Genomic DNA - 45 day old leaf sample - mutant f2045 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
7.5 97.5 GSM377075 Genomic DNA - 45 day old leaf sample - mutant g650 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
7.4 97.5 GSM377070 Genomic DNA - 45 day old leaf sample - mutant d1 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.5 97.2 GSM377084 Genomic DNA - 45 day old leaf sample - mutant f1856 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.3 97.2 GSM377074 Genomic DNA - 45 day old leaf sample - mutant g282 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.3 97.2 GSM377081 Genomic DNA - 45 day old leaf sample - mutant g7534 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.3 97.2 GSM377076 Genomic DNA - 45 day old leaf sample - mutant g6485 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.2 97.1 GSM377080 Genomic DNA - 45 day old leaf sample - mutant g6728 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.286 1 GO:0018279 The posttranslational glycosylation of protein via the N4 atom of peptidyl-asparagine forming N4-glycosyl-L-asparagine; the most common form is N-acetylglucosaminyl asparagine; N-acetylgalactosaminyl asparagine also occurs; this modification typically occurs in extracellular peptides with an N-X-(ST) motif. Partial modification has been observed to occur with cysteine, rather than serine or threonine, in the third position; secondary structure features are important, and proline in the second or fourth positions inhibits modification.
0.024 1 GO:0006457 The process of assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure.

Inter-species module comparison

A co-expression module including the Arabidopsis gene, At1g20200, orthologous to the query gene, Os09g0541900

VF %ile Gene ID Repr. ID Gene Name Func. O.I. H.G. S.X. Other DB
0.70 83.5 At1g20200 838609 EMB2719 (EMBRYO DEFECTIVE 2719) F:enzyme regulator activity;P:embryonic development ending in seed dormancy, ubiquitin-dependent protein catabolic process;C:plasma membrane, proteasome regulatory particle, lid subcomplex;MFPO O.I. H.G. S.X.
0.88 94.0 At1g53850 841822 PAE1 Encodes alpha5 subunit of 20s proteosome involved in protein degradation. O.I. H.G. S.X.
0.86 93.1 At1g13060 837863 PBE1 Encodes 20S proteasome beta subunit PBE1 (PBE1). O.I. H.G. S.X.
0.86 93.1 At4g14800 827135 PBD2 (20S PROTEASOME BETA SUBUNIT 2) Encodes 20S proteasome beta subunit PBD2 (PBD2). O.I. H.G. S.X.
0.86 93.1 At5g42790 834290 PAF1 encodes a protein with extensive homology to the largest subunit of the multicatalytic proteinase complex (proteasome) O.I. H.G. S.X.
0.86 93.1 At1g64520 842760 RPN12a (Regulatory Particle non-ATPase 12a) F:peptidase activity;P:in 14 processes;C:proteasome complex, nucleus, proteasome regulatory particle, lid subcomplex, chloroplast envelope;MFOP O.I. H.G. S.X.
0.77 88.0 At1g29150 839789 ATS9 (ARABIDOPSIS NON-ATPASE SUBUNIT 9) specifically interacts with FUS6/COP11 via the C-terminal domain of FUS6/COP11 and associates with an ATPase subunit of the 19S proteasome regulatory complex, AtS6A. O.I. H.G. S.X.
0.77 88.0 At5g40580 834056 PBB2 Encodes 20S proteasome beta subunit PBB2 (PBB2). O.I. H.G. S.X.
0.77 88.0 At4g31300 829257 PBA1 Encodes 20S proteasome subunit PBA1 (PBA1). O.I. H.G. S.X.
0.76 87.4 At3g22630 821834 PBD1 (20S PROTEASOME BETA SUBUNIT D1) Encodes 20S proteasome beta subunit PBD1 (PBD1). O.I. H.G. S.X.
0.76 87.4 At1g79210 844262 20S proteasome alpha subunit B, putative F:endopeptidase activity, threonine-type endopeptidase activity;P:defense response to bacterium, ubiquitin-dependent protein catabolic process;C:proteasome core complex;MFOPAB O.I. H.G. S.X.
0.71 84.2 At5g19990 832121 RPT6A (REGULATORY PARTICLE TRIPLE-A ATPASE 6A) 26S proteasome AAA-ATPase subunit O.I. H.G. S.X.
0.69 82.9 At3g14290 820649 PAE2 Encodes 20S proteasome subunit PAE2 (PAE2). O.I. H.G. S.X.
0.63 78.1 At3g22110 821774 PAC1 Encodes the alpha-3 subunit of 20s proteasome. O.I. H.G. S.X.
0.62 77.3 At4g24820 828585 26S proteasome regulatory subunit, putative (RPN7) F:molecular_function unknown;P:protein catabolic process, ubiquitin-dependent protein catabolic process;C:nucleus, plasma membrane, proteasome regulatory particle, lid subcomplex, membrane;MFPO O.I. H.G. S.X.
0.61 76.7 At3g51260 824289 PAD1 (20s proteasome alpha subunit pad1) 20S proteosomal alpha subunits. Interacts with SnRK, SKP1/ASK1 during proteasomal binding of an SCF ubiquitin ligase. O.I. H.G. S.X.
0.59 74.7 At1g21720 838776 PBC1 (PROTEASOME BETA SUBUNIT C1) 20S proteasome beta subunit PBC1 truncated protein (PBC1) O.I. H.G. S.X.

Select a plant to compare co-expressed genes between species.
Glycine_max
Hordeum_vulgare
Populus_trichocarpa
Triticum_aestivum
Vitis_vinifera
Zea_mays

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