Biological process to genes

Query process ID GO:0006260
Process name The process whereby new strands of DNA are synthesized. The template for replication can either be an existing DNA molecule or RNA.
Organism Arabidopsis thaliana

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

ECC Gene ID Repr. ID Gene name Functional description O.I. H.G. Other DB
XAt2g21790816715RNR1 (RIBONUCLEOTIDE REDUCTASE 1)encodes large subunit of ribonucleotide reductase involved in the production of deoxyribonucleoside triphosphates (dNTPs) for DNA replication and repairO.I.H.G.
XAt2g24490816985RPA2 (REPLICON PROTEIN A2)Encodes a component of Replication Protein A. Component of transcriptional gene silencing which does not affect endogenous small RNA accumulation nor DNA methylation. Localized in the nucleus. Involved in DNA repair. Interacts physically with ROS1.O.I.H.G.
XAt2g31270817684CDT1A (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.O.I.H.G.
XAt2g40550818650ETG1 (E2F TARGET GENE 1)Encodes a nuclear localized target of E2Fa-DPa, transcription factors controlling cell cycle progression.O.I.H.G.
XAt3g27060822324TSO2 (TSO meaning 'ugly' in Chinese)Encodes one of the 3 ribonucleotide reductase (RNR) small subunit genes. TSO2 transcription occurs predominantly at the S-phase of the cell cycle and its expression pattern is consistent with its role in dNDP biosynthesis during DNA replication in actively dividing cells. Critical for cell cycle progression, DNA damage repair and plant development.O.I.H.G.
XAt3g54710824636CDT1B (ARABIDOPSIS HOMOLOG OF YEAST CDT1 BARABIDOPSIS HOMOLOG OF YEAST CDT1 B)Encodes a cyclin-dependent protein kinase. Involved in nuclear DNA replication and plastid division.O.I.H.G.
XAt4g32700829406--O.I.H.G.
CAt1g07270837238cell division control protein CDC6b, putative (CDC6b)F:unknown;P:regulation of cell cycle, DNA replication;C:unknown;MAOFPO.I.H.G.
CAt1g08840837406emb2411 (embryo defective 2411)F:ATP-dependent DNA helicase activity, DNA binding, ATP binding;P:embryonic development ending in seed dormancy, DNA replication;C:chloroplast;MBOFPAVO.I.H.G.
CAt1g09815837513POLD4 (POLYMERASE DELTA 4)F:DNA-directed DNA polymerase activity;P:DNA replication;C:nucleus;FMPOO.I.H.G.
CAt1g26840839227ORC6 (ORIGIN RECOGNITION COMPLEX PROTEIN 6)Origin Recognition Complex subunit 6. Involved in the initiation of DNA replication. Regulated transcriptionally during cell cycle, peaking at G1/S-phase. Target of E2F/DF family of transcription factors.O.I.H.G.
CAt1g50840841506POLGAMMA2 (polymerase gamma 2)DNA Polymerase gamma2. Dual targeting to mitochondria and plastids due to alternative translation initiation.O.I.H.G.
CAt1g66730842991ATP dependent DNA ligase family proteinF:DNA binding, DNA ligase (ATP) activity, ATP binding;P:DNA repair, DNA replication, DNA recombination;C:chloroplast;BOMFAVPO.I.H.G.
CAt2g01120814641ORC4 (ORIGIN RECOGNITION COMPLEX SUBUNIT 4)Origin Recognition Complex subunit 4. Involved in the initiation of DNA replication. Regulated transcriptionally during cell cycle, peaking at G1/S-phase. Target of E2F/DF family of transcription factors. Interacts with all ORC subunits except ORC1b.O.I.H.G.
CAt2g06510815209RPA1A (REPLICATION PROTEIN A 1A)Encodes a homolog of Replication Protein A that is involved in meiosis I in pollen mother cells. rpa1a mutants have a reduced number of class I crossovers. The protein is located in chromatin-associated foci in early leptotene and can be detected in these foci until late pachytene of meiosis I.O.I.H.G.
CAt2g13840815867PHP domain-containing proteinF:DNA binding, DNA-directed DNA polymerase activity, catalytic activity;P:DNA replication;C:cellular_component unknown;BOAPFO.I.H.G.
CAt2g29680817518CDC6 (CELL DIVISION CONTROL 6)Encodes cell division control protein 6 (CDC6).O.I.H.G.
CAt2g37560818332ORC2 (ORIGIN RECOGNITION COMPLEX SECOND LARGEST SUBUNIT 2)Origin Recognition Complex subunit 2. Involved in the initiation of DNA replication. Regulated transcriptionally during cell cycle, peaking at G1/S-phase. Target of E2F/DF family of transcription factors. Interacts strongly with all ORC subunits.O.I.H.G.
CAt3g20540821600POLGAMMA1 (polymerase gamma 1)F:3'-5' exonuclease activity, DNA binding, DNA-directed DNA polymerase activity, nucleic acid binding;P:DNA replication, nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;C:mitochondrion, chloroplast, nucleoid;OBVMPO.I.H.G.
CAt4g12620826875ORC1B (ORIGIN OF REPLICATION COMPLEX 1B)Origin Recognition Complex subunit 1b. Involved in the initiation of DNA replication. Regulated transcriptionally during cell cycle, peaking at G1/S-phase. Target of E2F/DF family of transcription factors. Interacts with ORC2 and ORC5. Highly expressed in proliferating cells. Expression levels are independent of light regime.O.I.H.G.
CAt4g14700827121ORC1A (ORIGIN RECOGNITION COMPLEX 1)Encodes origin of replication complex 1a subunit.The protein contains a PHD domain,binds methylated DNA and appears to function as a transcriptional activator.O.I.H.G.
CAt4g29910829114ORC5 (ORIGIN RECOGNITION COMPLEX PROTEIN 5)Origin Recognition Complex subunit 5. Involved in the initiation of DNA replication. Interacts strongly with all ORC subunits.O.I.H.G.
CAt5g08020830696RPA70B (RPA70-KDA SUBUNIT B)Encodes a homolog of Replication Protein A. rpa70b mutants are hypersensitive to UV-B radiation and MMS treatments suggesting a role for this protein in DNA damage repair.O.I.H.G.
CAt5g16690831530ORC3 (ORIGIN RECOGNITION COMPLEX SUBUNIT 3)Origin Recognition Complex subunit 3. Involved in the initiation of DNA replication. Regulated transcriptionally during cell cycle, peaking at G1/S-phase. Target of E2F/DF family of transcription factors. Interacts with all ORC subunits except ORC1b.O.I.H.G.
CAt5g41880834193POLA3F:DNA primase activity;P:DNA replication, synthesis of RNA primer, DNA replication;C:unknown;MFOAPO.I.H.G.
CAt5g45400834576replication protein, putativeF:DNA binding, zinc ion binding, nucleic acid binding;P:DNA replication;C:nucleus;MPFOABO.I.H.G.
CAt5g61000836221replication protein, putativeF:DNA binding, nucleic acid binding;P:DNA replication;C:nucleus;PMOFAO.I.H.G.
CAt5g64420836563DNA polymerase V familyF:DNA-directed DNA polymerase activity, DNA binding;P:DNA replication, transcription;C:cellular_component unknown;MOFBPVO.I.H.G.
LAt1g08130837333ATLIG1 (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.O.I.H.G.
LAt1g10520837592DNA polymerase lambda (POLL)F:DNA binding, DNA-directed DNA polymerase activity, catalytic activity, nucleotidyltransferase activity;P:DNA repair, DNA replication;C:intracellular;MOBFAPVO.I.H.G.
LAt1g14460838008DNA polymerase-relatedF:nucleoside-triphosphatase activity, DNA binding, DNA-directed DNA polymerase activity, nucleotide binding, ATP binding;P:DNA replication;C:plasma membrane;BOMFAPVO.I.H.G.
LAt1g30680839948toprim domain-containing proteinF:DNA helicase activity, nucleic acid binding, ATP binding;P:DNA replication, DNA metabolic process;C:unknown;OVBMPO.I.H.G.
LAt1g49250841349ATP dependent DNA ligase family proteinF:DNA binding, DNA ligase (ATP) activity, ATP binding;P:DNA repair, DNA recombination, DNA replication;C:cellular_component unknown;BOMFAVPO.I.H.G.
LAt1g63160842620replication factor C 40 kDa, putativeF:in 6 functions;P:DNA replication;C:DNA replication factor C complex;BOMFAPVO.I.H.G.
LAt1g67630843086POLA2 (DNA POLYMERASE ALPHA 2)F:DNA binding, DNA-directed DNA polymerase activity;P:DNA replication;C:mitochondrion;MFOPO.I.H.G.
LAt2g14050815890MCM9F:nucleoside-triphosphatase activity, DNA-dependent ATPase activity, DNA binding, nucleotide binding, ATP binding;P:DNA replication initiation, DNA replication;C:cellular_component unknown;MOBFAPVO.I.H.G.
LAt2g27120817254TIL2 (TILTED 2)Encodes a protein with similarity to DNA polymerase epsilon catalytic subunit. Based on yeast two hybrid analysis, not predicted to be a subunit of the DNA polymerase epsilon complex. No phenotype observed in homozygous mutant embryos or plants but in combination with TIL1-1/til1-1 heterozygotes arrest earlier than til1 homozygotes suggesting TIL2 functions redundantly with TIL1.O.I.H.G.
LAt2g42120818812POLD2 (DNA POLYMERASE DELTA SMALL SUBUNIT)F:DNA binding, DNA-directed DNA polymerase activity;P:DNA replication;C:nucleus;OMFAPO.I.H.G.
LAt3g09100820064mRNA capping enzyme family proteinF:phosphatase activity, protein tyrosine phosphatase activity, protein tyrosine/serine/threonine phosphatase activity, mRNA guanylyltransferase activity, polynucleotide 5'-phosphatase activity;P:protein amino acid dephosphorylation, mRNA processing, mRNA capping, dephosphorylation;C:nucleus;MFOVPO.I.H.G.
LAt3g09660820123MCM8F:nucleoside-triphosphatase activity, DNA-dependent ATPase activity, DNA binding, nucleotide binding, ATP binding;P:DNA replication initiation, DNA replication;C:cellular_component unknown;MOFPABVO.I.H.G.
LAt3g12530820432PSF2F:molecular_function unknown;P:DNA replication;C:nucleus;MFOPO.I.H.G.
LAt4g18820827616ATP binding / DNA binding / DNA-directed DNA polymerase/ nucleoside-triphosphatase/ nucleotide bindingF:nucleoside-triphosphatase activity, DNA-directed DNA polymerase activity, DNA binding, nucleotide binding, ATP binding;P:DNA replication;C:plasma membrane;BOMFAPVO.I.H.G.
LAt4g19130827651DNA binding / nucleic acid binding / zinc ion bindingF:DNA binding, zinc ion binding, nucleic acid binding;P:DNA replication;C:nucleus;MPOFAO.I.H.G.
LAt4g24790828581ATP binding / DNA binding / DNA-directed DNA polymeraseF:DNA binding, DNA-directed DNA polymerase activity, ATP binding;P:DNA replication;C:DNA polymerase III complex;BOFMAPVO.I.H.G.
LAt5g22010832261AtRFC1 (replication factor C 1)F:DNA clamp loader activity, nucleoside-triphosphatase activity, DNA binding, nucleotide binding, ATP binding;P:DNA replication;C:DNA replication factor C complex, intracellular;BOMFAPVO.I.H.G.
LAt5g22110832272ATDPB2 (ARABIDOPSIS THALIANA DNA POLYMERASE EPSILON SUBUNIT B2)Encodes a protein with similarity to DNA polymerase epsilon subunit B an essential gene that is required for DNA replication. Homozygous mutants are embryo lethal. Expressed in meristematic , rapidly dividing regions.O.I.H.G.
LAt5g45720834611ATP binding / DNA binding / DNA-directed DNA polymerase/ nucleoside-triphosphatase/ nucleotide bindingF:nucleoside-triphosphatase activity, DNA binding, DNA-directed DNA polymerase activity, nucleotide binding, ATP binding;P:DNA replication;C:DNA polymerase III complex;OBMFAPVO.I.H.G.
LAt5g52800835357DNA primaseF:DNA primase activity;P:DNA replication;C:cellular_component unknown;MOPVO.I.H.G.
LAt5g63960836517EMB2780 (EMBRYO DEFECTIVE 2780)F:DNA-directed DNA polymerase activity, DNA binding, nucleotide binding, nucleic acid binding;P:nucleobase, nucleoside, nucleotide and nucleic acid metabolic process, DNA replication;C:nucleus;OVBMFAPO.I.H.G.



The upper GO terms

Process ID Gene number Process name
GO:000625923The chemical reactions and pathways involving DNA, deoxyribonucleic acid, one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides.
GO:00349610The chemical reactions and pathways resulting in the formation of biopolymers, long, repeating chains of monomers found in nature, such as polysaccharides and proteins, as carried out by individual cells.



The lower GO terms

Process ID Gene number Process name
GO:00007310Synthesis of DNA that proceeds from the broken 3' single-strand DNA end uses the homologous intact duplex as the template.
GO:00013260Replication of circular DNA following excision from the chromosome; replication of extrachromosomal circular DNA generally occurs independently of chromosomal replication.
GO:00062613The process whereby new strands of DNA are synthesized, using parental DNA as a template for the DNA-dependent DNA polymerases that synthesize the new strands.
GO:00062770The process by which the number of copies of a gene is increased in certain cells as extra copies of DNA are made in response to certain signals of cell development or of stress from the environment.
GO:00062787The process whereby new strands of DNA are synthesized, using RNA as a template for RNA-dependent DNA polymerases (e.g. reverse transcriptase) that synthesize the new strands.
GO:00062791The replication of DNA that precedes meiotic cell division.





Comparison with co-expressed genes



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