CoP: Co-expressed Biological Processes

Gene omics information

Query gene ID At1g66730

Gene name ATP dependent DNA ligase 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
1.00 100.0 At1g66730 842991 ATP dependent DNA ligase family protein F:DNA binding, DNA ligase (ATP) activity, ATP binding;P:DNA repair, DNA replication, DNA recombination;C:chloroplast;BOMFAVP S.X. H.G.
0.88 94.0 At3g58800 825049 unknown protein F:molecular_function unknown;P:biological_process unknown;C:unknown;PVO S.X. H.G.
0.83 91.4 At1g17040 838274 SHA (SH2 DOMAIN PROTEIN A) Encodes a protein that contains an SH2 domain. It can pull down a 120-kD tyrosine-phosphorylated protein in vitro. It is predicted to act as a transcription factor. S.X. H.G.
0.80 89.8 At5g58760 835990 DDB2 (damaged DNA-binding 2) F:nucleotide binding, zinc ion binding, nucleic acid binding;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex;MFOBPA S.X. H.G.
0.80 89.8 At3g07400 819928 lipase class 3 family protein F:triacylglycerol lipase activity;P:lipid metabolic process;C:cellular_component unknown;PFOMB S.X. H.G.
0.79 89.1 At5g25380 832610 CYCA2 core cell cycle genes S.X. H.G.
0.79 89.1 At2g02090 814740 ETL1 F:helicase activity, DNA binding, ATP binding, nucleic acid binding;P:unknown;C:chloroplast;BMOFPVA S.X. H.G.
0.78 88.6 At3g12140 820389 emsy N terminus domain-containing protein / ENT domain-containing protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMO S.X. H.G.
0.74 86.1 At4g02730 828189 transducin family protein / WD-40 repeat family protein F:nucleotide binding;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex, heterotrimeric G-protein complex;MFOPBAV S.X. H.G.
0.74 86.1 At3g59550 825124 SYN3 Encodes an alpha-kleisin protein that is localized primarily in the nucleolus and is essential for megagametogenesis and plays an important role in pollen development. alpha-kleisins are core components of meiotic and mitotic cohesin complexes. 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
369.1 100.0 E-ATMX-35-raw-cel-1574334832
259.6 100.0 GSM184556 Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
220.2 100.0 E-ATMX-35-raw-cel-1574334800
180.2 100.0 E-ATMX-35-raw-cel-1574334816
134.7 99.9 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
99.3 99.9 E-MEXP-509-raw-cel-829148597
88.4 99.9 E-MEXP-509-raw-cel-829148420
81.1 99.9 E-MEXP-509-raw-cel-829148348
73.4 99.9 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
67.9 99.9 E-MEXP-509-raw-cel-829148385
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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
0.01 3e-2 42 At3g44180 823540 syntaxin-related family protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P C.G. S.X.
0.01 1e-1 40 At4g02425 828030 unknown protein F:molecular_function unknown;P:biological_process unknown;C:chloroplast;PM C.G. S.X.
0.01 1e-1 40 At3g02060 821294 DEAD/DEAH box helicase, putative F:transcription factor activity, helicase activity, nucleic acid binding, ATP-dependent helicase activity, ATP binding;P:regulation of transcription, DNA-dependent;C:chloroplast;BOMFPAV C.G. S.X.
0.01 1e-1 40 At2g36650 818237 - F:molecular_function unknown;P:biological_process unknown;C:unknown;MOBFPAV C.G. S.X.
0.01 1e-1 40 At2g40980 818698 - F:unknown;P:unknown;C:plasma membrane;BPO C.G. S.X.
0.01 1e-1 40 At1g53163 5007796 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OBMFPV C.G. S.X.
0.01 1e-1 40 At1g08130 837333 ATLIG1 (ARABIDOPSIS THALIANA DNA LIGASE 1) Encodes the Arabidopsis DNA ligase 1 that provides the major DNA ligase activity in cells and plays a key role in both DNA replication and excision repair pathways. Indispensable for cell viability. AtLIG1 expresses one major and two minor mRNA transcripts differing only in the length of the 5' untranslated leader sequences preceding a common ORF. Translation from the first in-frame start codon produces an AtLIG1 isoform that is targeted exclusively to the mitochondria. Translation initiation from the second in-frame start codon produces an AtLIG1 isoform targeted only to the nucleus. C.G. S.X.
0.01 5e-1 38 At3g09040 820057 pentatricopeptide (PPR) repeat-containing protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POMFB 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 8e-1 38 Glycine max Gma.13603.1.A1_at BM271348 - - 2e+0 At5g47230 ERF5 (ETHYLENE RESPONSIVE ELEMENT BINDING FACTOR 5) C.G. S.X.
0.01 2e-2 42 Hordeum vulgare Contig13164_at Contig13164 - - 2e+0 At5g60553 - C.G. S.X.
0.10 1e-18 97 Oryza sativa Os01g0685500 AK064463.1 - ATP-dependent DNA ligase family protein 3e-13 At1g66730 ATP dependent DNA ligase family protein C.G. S.X.
0.16 3e-49 198 Populus trichocarpa PtpAffx.203946.1.S1_at pmrna7787 hypothetical protein - 8e-50 At1g66730 ATP dependent DNA ligase family protein C.G. S.X.
0.01 6e-1 38 Triticum aestivum TaAffx.107573.1.S1_at CA697850 - - 1e+1 At3g57750 protein kinase, putative C.G. S.X.
0.01 2e-1 38 Vitis vinifera 1616831_at CB978612 - - 4e-1 At1g06950 TIC110 (TRANSLOCON AT THE INNER ENVELOPE MEMBRANE OF CHLOROPLASTS 110) C.G. S.X.
0.01 9e-1 36 Zea mays Zm.5679.1.S1_at CD437138 hypothetical protein LOC100216885 - 3e-3 At2g43950 OEP37 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:0006260 The process whereby new strands of DNA are synthesized. The template for replication can either be an existing DNA molecule or RNA.
C GO:0006281 The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations, chemical mutagens, fungal and bacterial toxins, etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal, base excision repair, nucleotide excision repair, photoreactivation, bypass, double-strand break repair pathway, and mismatch repair pathway.
C GO:0006310 Any process by which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Intrachromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction.
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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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