CoP: Co-expressed Biological Processes

Biological process to genes

Query process ID GO:0006334

Process name The aggregation, arrangement and bonding together of a nucleosome, the beadlike structural units of eukaryotic chromatin composed of histones and DNA.

Organism Oryza sativa

Click Gene ID to show a list of co-expressed genes.

ECC Gene ID Repr. ID Gene name Functional description Ev AGI code Arabidopsis gene name O.I. H.G. Other DB
C Os01g0149400 - - - 0 - - O.I. H.G.
C Os01g0149600 - - - 0 - - O.I. H.G.
C Os01g0152300 CF291303 - Histone H2B.1 8e-24 At1g07790 HTB1 O.I. H.G.
C Os01g0152700 - - - 0 - - O.I. H.G.
C Os01g0153100 CB662157 - Histone H2B.1 8e-21 At1g07790 HTB1 O.I. H.G.
C Os01g0153300 CB631324 - Histone H2B.1 3e-14 At1g07790 HTB1 O.I. H.G.
C Os01g0502700 - - - 0 - - O.I. H.G.
C Os01g0589300 AK058846.1 - Single myb histone 1 9e-4 At1g49950 DNA-binding protein, putative O.I. H.G.
C Os01g0839500 BE039851 - Histone H2B (CaH2B) 3e-29 At1g07790 HTB1 O.I. H.G.
C Os05g0597200 X88798.1 - AT1 protein 2e-1 At4g39720 VQ motif-containing protein O.I. H.G.
C Os06g0130800 U74296.1 - Histone H5 family protein 6e-1 At5g47700 60S acidic ribosomal protein P1 (RPP1C) O.I. H.G.
C Os09g0402100 L24390.1 - PF1 protein 8e+0 At2g34160 nucleic acid binding O.I. H.G.
C Os10g0418000 AF193345.1 - Histone H2A.F/Z (At3g54560) 6e-10 At1g52740 HTA9 (HISTONE H2A PROTEIN 9) O.I. H.G.
L Os01g0152900 9629.m00523 - Histone H2B 4e-22 At1g07790 HTB1 O.I. H.G.
L Os01g0708000 BX901219 - Linker histone, N-terminal domain containingprotein 7e-1 At2g35260 unknown protein O.I. H.G.
L Os02g0457100 - - - 0 - - O.I. H.G.
L Os02g0457300 9630.m02434 - - 1e-22 At4g40040 histone H3.2 O.I. H.G.
L Os03g0162200 AK121533.1 - Histone H2A 3e-11 At1g52740 HTA9 (HISTONE H2A PROTEIN 9) O.I. H.G.
L Os03g0743400 CF330294 - Histone H2A 7e+0 At5g55190 RAN3 (RAN GTPASE 3) O.I. H.G.
L Os03g0799000 AK067840.1 - Histone H1 7e-1 At5g23480 DNA binding O.I. H.G.
L Os04g0459700 AK102874.1 - Nucleosome assembly protein (NAP) family protein 4e-5 At1g18800 NRP2 (NAP1-RELATED PROTEIN 2) O.I. H.G.
L Os05g0113900 AK074018.1 - Histone H2A 2e-9 At1g08880 H2AXA O.I. H.G.
L Os05g0235600 - - - 0 - - O.I. H.G.
L Os05g0461400 AK067406.1 - Histone H2A.2.1 6e-13 At4g27230 HTA2 (histone H2A) O.I. H.G.
L Os05g0489800 AY438639.1 - Histone H3.2 3e-5 At4g40040 histone H3.2 O.I. H.G.
L Os05g0539700 AK105671.1 - Nucleosome assembly protein 1 3e-34 At2g19480 NAP1 O.I. H.G.
L Os05g0574300 - - - 0 - - O.I. H.G.
L Os06g0130900 D10965.1 - Histone H3.3 1e-3 At4g40030 histone H3.2 O.I. H.G.
L Os06g0149400 AK071177.1 - Nucleosome assembly protein 1 1e-36 At5g56950 NAP1 O.I. H.G.
L Os07g0184800 AK059544.1 - Histone-like protein 1e-1 At2g46090 diacylglycerol kinase family protein O.I. H.G.
L Os07g0545300 AK099888.1 - Histone H2A 5e-19 At4g27230 HTA2 (histone H2A) O.I. H.G.
L Os07g0545400 AK059228.1 - Protein H2A 4e-7 At5g54640 RAT5 (RESISTANT TO AGROBACTERIUM TRANSFORMATION 5) O.I. H.G.
L Os08g0427700 - - - 0 - - O.I. H.G.
L Os08g0490900 - - - 0 - - O.I. H.G.
L Os10g0539500 AK119699.1 - Histone H4 6e-24 At5g59690 histone H4 O.I. H.G.
L Os12g0613300 AK100618.1 - Myb, DNA-binding domain containing protein 1e-2 At1g49950 DNA-binding protein, putative O.I. H.G.

ECC	Gene ID	Repr. ID	Gene name	Functional description	Ev	AGI code	Arabidopsis gene name	O.I.	H.G.
C	Os01g0149400	-	-	-	0	-	-	O.I.	H.G.
C	Os01g0149600	-	-	-	0	-	-	O.I.	H.G.
C	Os01g0152300	CF291303	-	Histone H2B.1	8e-24	At1g07790	HTB1	O.I.	H.G.
C	Os01g0152700	-	-	-	0	-	-	O.I.	H.G.
C	Os01g0153100	CB662157	-	Histone H2B.1	8e-21	At1g07790	HTB1	O.I.	H.G.
C	Os01g0153300	CB631324	-	Histone H2B.1	3e-14	At1g07790	HTB1	O.I.	H.G.
C	Os01g0502700	-	-	-	0	-	-	O.I.	H.G.
C	Os01g0589300	AK058846.1	-	Single myb histone 1	9e-4	At1g49950	DNA-binding protein, putative	O.I.	H.G.
C	Os01g0839500	BE039851	-	Histone H2B (CaH2B)	3e-29	At1g07790	HTB1	O.I.	H.G.
C	Os05g0597200	X88798.1	-	AT1 protein	2e-1	At4g39720	VQ motif-containing protein	O.I.	H.G.
C	Os06g0130800	U74296.1	-	Histone H5 family protein	6e-1	At5g47700	60S acidic ribosomal protein P1 (RPP1C)	O.I.	H.G.
C	Os09g0402100	L24390.1	-	PF1 protein	8e+0	At2g34160	nucleic acid binding	O.I.	H.G.
C	Os10g0418000	AF193345.1	-	Histone H2A.F/Z (At3g54560)	6e-10	At1g52740	HTA9 (HISTONE H2A PROTEIN 9)	O.I.	H.G.
L	Os01g0152900	9629.m00523	-	Histone H2B	4e-22	At1g07790	HTB1	O.I.	H.G.
L	Os01g0708000	BX901219	-	Linker histone, N-terminal domain containingprotein	7e-1	At2g35260	unknown protein	O.I.	H.G.
L	Os02g0457100	-	-	-	0	-	-	O.I.	H.G.
L	Os02g0457300	9630.m02434	-	-	1e-22	At4g40040	histone H3.2	O.I.	H.G.
L	Os03g0162200	AK121533.1	-	Histone H2A	3e-11	At1g52740	HTA9 (HISTONE H2A PROTEIN 9)	O.I.	H.G.
L	Os03g0743400	CF330294	-	Histone H2A	7e+0	At5g55190	RAN3 (RAN GTPASE 3)	O.I.	H.G.
L	Os03g0799000	AK067840.1	-	Histone H1	7e-1	At5g23480	DNA binding	O.I.	H.G.
L	Os04g0459700	AK102874.1	-	Nucleosome assembly protein (NAP) family protein	4e-5	At1g18800	NRP2 (NAP1-RELATED PROTEIN 2)	O.I.	H.G.
L	Os05g0113900	AK074018.1	-	Histone H2A	2e-9	At1g08880	H2AXA	O.I.	H.G.
L	Os05g0235600	-	-	-	0	-	-	O.I.	H.G.
L	Os05g0461400	AK067406.1	-	Histone H2A.2.1	6e-13	At4g27230	HTA2 (histone H2A)	O.I.	H.G.
L	Os05g0489800	AY438639.1	-	Histone H3.2	3e-5	At4g40040	histone H3.2	O.I.	H.G.
L	Os05g0539700	AK105671.1	-	Nucleosome assembly protein 1	3e-34	At2g19480	NAP1	O.I.	H.G.
L	Os05g0574300	-	-	-	0	-	-	O.I.	H.G.
L	Os06g0130900	D10965.1	-	Histone H3.3	1e-3	At4g40030	histone H3.2	O.I.	H.G.
L	Os06g0149400	AK071177.1	-	Nucleosome assembly protein 1	1e-36	At5g56950	NAP1	O.I.	H.G.
L	Os07g0184800	AK059544.1	-	Histone-like protein	1e-1	At2g46090	diacylglycerol kinase family protein	O.I.	H.G.
L	Os07g0545300	AK099888.1	-	Histone H2A	5e-19	At4g27230	HTA2 (histone H2A)	O.I.	H.G.
L	Os07g0545400	AK059228.1	-	Protein H2A	4e-7	At5g54640	RAT5 (RESISTANT TO AGROBACTERIUM TRANSFORMATION 5)	O.I.	H.G.
L	Os08g0427700	-	-	-	0	-	-	O.I.	H.G.
L	Os08g0490900	-	-	-	0	-	-	O.I.	H.G.
L	Os10g0539500	AK119699.1	-	Histone H4	6e-24	At5g59690	histone H4	O.I.	H.G.
L	Os12g0613300	AK100618.1	-	Myb, DNA-binding domain containing protein	1e-2	At1g49950	DNA-binding protein, putative	O.I.	H.G.

The upper GO terms

Process ID Gene number Process name
GO:0031497 0 The assembly of DNA, histone proteins, and other associated proteins into chromatin structure, beginning with the formation of the basic unit, the nucleosome, followed by organization of the nucleosomes into higher order structures, ultimately giving rise to a complex organization of specific domains within the nucleus.
GO:0034728 0 A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of one or more nucleosomes.
GO:0065004 0 The aggregation, arrangement and bonding together of proteins and DNA molecules to form a protein-DNA complex.

Process ID	Gene number	Process name
GO:0031497	0	The assembly of DNA, histone proteins, and other associated proteins into chromatin structure, beginning with the formation of the basic unit, the nucleosome, followed by organization of the nucleosomes into higher order structures, ultimately giving rise to a complex organization of specific domains within the nucleus.
GO:0034728	0	A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of one or more nucleosomes.
GO:0065004	0	The aggregation, arrangement and bonding together of proteins and DNA molecules to form a protein-DNA complex.

The lower GO terms

Process ID Gene number Process name
GO:0006335 0 The formation of nucleosomes on newly replicated DNA, coupled to strand elongation.
GO:0006336 0 The formation of nucleosomes outside the context of DNA replication.

Process ID	Gene number	Process name
GO:0006335	0	The formation of nucleosomes on newly replicated DNA, coupled to strand elongation.
GO:0006336	0	The formation of nucleosomes outside the context of DNA replication.

Comparison with co-expressed genes

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Query process ID	GO:0006334
Process name	The aggregation, arrangement and bonding together of a nucleosome, the beadlike structural units of eukaryotic chromatin composed of histones and DNA.
Organism	Oryza sativa

Biological process to genes

Query process ID GO:0006334 Process name The aggregation, arrangement and bonding together of a nucleosome, the beadlike structural units of eukaryotic chromatin composed of histones and DNA. Organism Oryza sativa

The upper GO terms

The lower GO terms

Process ID Gene number Process name GO:00063350The formation of nucleosomes on newly replicated DNA, coupled to strand elongation.GO:00063360The formation of nucleosomes outside the context of DNA replication.

Comparison with co-expressed genes

Query process ID GO:0006334

Process name The aggregation, arrangement and bonding together of a nucleosome, the beadlike structural units of eukaryotic chromatin composed of histones and DNA.

Organism Oryza sativa

Process ID Gene number Process name
GO:0006335 0 The formation of nucleosomes on newly replicated DNA, coupled to strand elongation.
GO:0006336 0 The formation of nucleosomes outside the context of DNA replication.