Gene omics information

Query gene ID At3g13940
Gene name DNA binding / DNA-directed RNA polymerase
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%ileGene/Probe IDRepr.IDGene NameFunctional DescriptionS.X.H.G.Other DB
0.7989.1At3g13940820607DNA binding / DNA-directed RNA polymeraseF:DNA-directed RNA polymerase activity, DNA binding;P:transcription;C:nucleus;FMPOBS.X.H.G.
0.9697.3At2g20740816603-F:molecular_function unknown;P:biological_process unknown;C:endomembrane system, integral to membrane;POS.X.H.G.
0.9697.3At4g01570828133pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:unknown;POFMBAS.X.H.G.
0.9697.3At5g32450833204RNA recognition motif (RRM)-containing proteinF:oxidoreductase activity, nucleotide binding, nucleic acid binding;P:oxidation reduction;C:unknown;PFMOS.X.H.G.
0.9296.0At2g36990818273SIGF (RNA POLYMERASE SIGMA-SUBUNIT F)Encodes a general sigma factor in chloroplasts and is probably responsible for the recognition of sigma 70 type standard bacteria-type multi-subunit RNA polymerase (PEP) promoters in young cotyledons.S.X.H.G.
0.9296.0At3g62330825406zinc knuckle (CCHC-type) family proteinF:zinc ion binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MOFPBVS.X.H.G.
0.8994.6At2g21195816656unknown proteinF:molecular_function unknown;P:response to oxidative stress;C:cellular_component unknown;PS.X.H.G.
0.8994.6At5g18570831975GTP1/OBG family proteinF:GTP binding, nucleotide binding;P:unknown;C:intracellular, chloroplast;BOMFAPVS.X.H.G.
0.8994.6At5g24400832511emb2024 (embryo defective 2024)F:6-phosphogluconolactonase activity, catalytic activity;P:embryonic development ending in seed dormancy, carbohydrate metabolic process;C:peroxisome, chloroplast stroma, chloroplast;BOMFPS.X.H.G.
0.8693.1At1g07970837312unknown proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;MPFOBS.X.H.G.
Click here to hide the above table.

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%ileGSM IDAssay NameGSE IDExperiment Title
456.6100.0GSM133757Lindsey_1-8_heart-stage-cotyledon_Rep2_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissues
25.999.7GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis root
23.799.6GSM133319RIKEN-LI5AGSE5701AtGenExpress: Basic hormone treatment of seeds
23.099.6GSM133120RIKEN-YAMAUCHI2BGSE5687AtGenExpress: Different temperature treatment of seeds
21.499.6GSM133313RIKEN-LI2AGSE5701AtGenExpress: Basic hormone treatment of seeds
20.399.6GSM133307RIKEN-NAKABAYASHI3AGSE5700AtGenExpress: Effect of ABA during seed imbibition
19.899.6GSM133119RIKEN-YAMAUCHI2AGSE5687AtGenExpress: Different temperature treatment of seeds
Click here to hide the above table.

Homologous genes

Paralogous genes

Click Gene ID to show a list of homologous genes.

HFEvBSGene IDRepr. IDGene NameFunctional descriptionC.G.S.X.Other DB
0.022e-138At5g03050831689unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PC.G.S.X.
0.012e-138At2g14910815980unknown proteinF:unknown;P:unknown;C:chloroplast;BOPMC.G.S.X.
0.012e-138At1g64280842733NPR1 (NONEXPRESSER OF PR GENES 1)This gene is a key regulator of the salicylic acid (SA)-mediated systemic acquired resistance (SAR) pathway. It is similar to the transcription factor inhibitor I kappa B, and contains ankyrin repeats. It confers resistance to the pathogens Pseudomonas syringae and Peronospora parasitica in a dosage-dependent fashion. Although transgenic Arabidopsis plants overexpressing NPR1 acquire enhanced sensitivity to SA and (benzothiadiazole) BTH, they display no obvious detrimental morphological changes and do not have elevated pathogenesis-related gene expression until activated by inducers or pathogens.C.G.S.X.
0.012e-138At1g07330837244unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMPFBAC.G.S.X.
0.017e-136At5g55130835604CNX5 (CO-FACTOR FOR NITRATE, REDUCTASE AND XANTHINE DEHYDROGENASE 5)putative molybdopterin synthase sulphurylase (cnx5)C.G.S.X.
Click here to hide the above table.

Orthologous genes

Click Gene ID to show a list of orthologous genes.

HFEvBSSpeciesGene IDRepr. IDGene NameFunctional descriptionEvAGI codeArabidopsis gene nameC.G.S.X.Other DB
0.029e-136Glycine maxGmaAffx.47359.1.S1_atBU964713--3e-25At3g04820pseudouridine synthaseC.G.S.X.
0.021e+034Hordeum vulgareHVSMEf0015I06r2_atHVSMEf0015I06r2--4e+0At4g36590MADS-box protein (AGL40)C.G.S.X.
0.023e-138Oryza sativaOsAffx.30923.1.S1_at---0C.G.S.X.
0.026e-240Populus trichocarpaPtpAffx.25334.2.S1_atCV262387hypothetical protein-1e+1At5g44574unknown proteinC.G.S.X.
0.027e-136Triticum aestivumTaAffx.89766.1.S1_atCA657290--4e-1At3g13940DNA binding / DNA-directed RNA polymeraseC.G.S.X.
0.023e+032Vitis vinifera1622652_atCD004838--9e-1At5g53070ribosomal protein L9 family proteinC.G.S.X.
0.011e+034Zea maysZm.821.1.A1_atCO524526--2e+0At1g38790unknown proteinC.G.S.X.
Click here to hide the above table.

Biological processes

Click GO ID to show a list of genes that are associated with the GO ID.

ECCGO IDProcess Name
LGO:0006350The synthesis of either RNA on a template of DNA or DNA on a template of RNA.
Click here to hide the above table.

Metabolic pathways

Click KaPPA-View ID to show a list of genes that are assigned to the KaPPA-View ID.

KaPPA-View IDLink to Kappa-ViewPathway Name

Click KEGG PATHWAY ID to show a list of genes that are assigned to the KEGG PATHWAY ID.

Click here to hide the above table.

Back to the CoP portal site

Back to the KAGIANA project homepage