Basic Information
Gene Structure
Domain
Regulation&
Interaction
Annotation
Orthologus Group
Pathway
Basic Information
Gene ID
gene-IMY05_C4466000600
View in Genome Browser
Position
JAEQKX010000678.1:27423-29984 (+)
2561bp
Gene Type
gene
Gene Description (Protein Product)
DUF1744-domain-containing protein
Organism
Salix suchowensis
Also AS AT1G08260

Gene Structure

upstream:
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Domain
Database EntryID E-Value Start end InterPro ID Description

Regulation&Interaction
Protein-protein interaction (PPI)
gene-IMY05_C4485001000 DNA mismatch repair
gene-IMY05_C4485000900 Dna mismatch repair
gene-IMY05_C4826000100 DNA ligase

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Annotation

Orthologous Group
Orthologous ID Species Number All hits in PereRegDB Hits of this species Orthologous Detail


Pathway
Go Pathway KEGG Pathway
GO Term Description GO Category
GO:0000003 reproduction BP
GO:0000070 mitotic sister chromatid segregation BP
GO:0000075 cell cycle checkpoint signaling BP
GO:0000076 DNA replication checkpoint signaling BP
GO:0000077 DNA damage checkpoint signaling BP
GO:0000228 nuclear chromosome CC
GO:0000278 mitotic cell cycle BP
GO:0000280 nuclear division BP
GO:0000726 obsolete non-recombinational repair BP
GO:0000731 DNA synthesis involved in DNA repair BP
GO:0000781 chromosome, telomeric region CC
GO:0000784 chromosome, telomeric region CC
GO:0000819 sister chromatid segregation BP
GO:0001672 regulation of chromatin organization BP
GO:0003674 molecular_function MF
GO:0003676 nucleic acid binding MF
GO:0003677 DNA binding MF
GO:0003690 double-stranded DNA binding MF
GO:0003697 single-stranded DNA binding MF
GO:0003723 RNA binding MF
GO:0003729 mRNA binding MF
GO:0003824 catalytic activity MF
GO:0003887 DNA-directed DNA polymerase activity MF
GO:0004518 nuclease activity MF
GO:0004527 exonuclease activity MF
GO:0004529 DNA exonuclease activity MF
GO:0004536 deoxyribonuclease activity MF
GO:0005488 binding MF
GO:0005575 cellular_component CC
GO:0005622 intracellular anatomical structure CC
GO:0005623 obsolete cell CC
GO:0005634 nucleus CC
GO:0005657 replication fork CC
GO:0005694 chromosome CC
GO:0006139 nucleobase-containing compound metabolic process BP
GO:0006259 DNA metabolic process BP
GO:0006260 DNA replication BP
GO:0006261 DNA-templated DNA replication BP
GO:0006270 DNA replication initiation BP
GO:0006271 DNA strand elongation involved in DNA replication BP
GO:0006272 leading strand elongation BP
GO:0006279 premeiotic DNA replication BP
GO:0006281 DNA repair BP
GO:0006284 base-excision repair BP
GO:0006287 base-excision repair, gap-filling BP
GO:0006289 nucleotide-excision repair BP
GO:0006297 nucleotide-excision repair, DNA gap filling BP
GO:0006301 postreplication repair BP
GO:0006302 double-strand break repair BP
GO:0006303 double-strand break repair via nonhomologous end joining BP
GO:0006310 DNA recombination BP
GO:0006325 chromatin organization BP
GO:0006342 heterochromatin formation BP
GO:0006355 regulation of DNA-templated transcription BP
GO:0006725 cellular aromatic compound metabolic process BP
GO:0006807 nitrogen compound metabolic process BP
GO:0006950 response to stress BP
GO:0006974 cellular response to DNA damage stimulus BP
GO:0006996 organelle organization BP
GO:0007049 cell cycle BP
GO:0007059 chromosome segregation BP
GO:0007062 sister chromatid cohesion BP
GO:0007064 mitotic sister chromatid cohesion BP
GO:0007093 mitotic cell cycle checkpoint signaling BP
GO:0007346 regulation of mitotic cell cycle BP
GO:0008150 biological_process BP
GO:0008152 metabolic process BP
GO:0008296 3'-5'-DNA exonuclease activity MF
GO:0008297 single-stranded DNA exodeoxyribonuclease activity MF
GO:0008310 single-stranded DNA 3'-5' DNA exonuclease activity MF
GO:0008408 3'-5' exonuclease activity MF
GO:0008622 epsilon DNA polymerase complex CC
GO:0009058 biosynthetic process BP
GO:0009059 macromolecule biosynthetic process BP
GO:0009889 regulation of biosynthetic process BP
GO:0009890 negative regulation of biosynthetic process BP
GO:0009892 negative regulation of metabolic process BP
GO:0009987 cellular process BP
GO:0010389 regulation of G2/M transition of mitotic cell cycle BP
GO:0010468 regulation of gene expression BP
GO:0010556 regulation of macromolecule biosynthetic process BP
GO:0010558 negative regulation of macromolecule biosynthetic process BP
GO:0010564 regulation of cell cycle process BP
GO:0010605 negative regulation of macromolecule metabolic process BP
GO:0010629 negative regulation of gene expression BP
GO:0010638 positive regulation of organelle organization BP
GO:0010847 obsolete regulation of chromatin assembly BP
GO:0010948 negative regulation of cell cycle process BP
GO:0010964 regulation of small non-coding RNA-mediated heterochromatin formation BP
GO:0010972 negative regulation of G2/M transition of mitotic cell cycle BP
GO:0016043 cellular component organization BP
GO:0016070 RNA metabolic process BP
GO:0016458 obsolete gene silencing BP
GO:0016740 transferase activity MF
GO:0016772 transferase activity, transferring phosphorus-containing groups MF
GO:0016779 nucleotidyltransferase activity MF
GO:0016787 hydrolase activity MF
GO:0016788 hydrolase activity, acting on ester bonds MF
GO:0016796 exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters MF
GO:0016895 DNA exonuclease activity, producing 5'-phosphomonoesters MF
GO:0018130 heterocycle biosynthetic process BP
GO:0019219 regulation of nucleobase-containing compound metabolic process BP
GO:0019222 regulation of metabolic process BP
GO:0019438 aromatic compound biosynthetic process BP
GO:0019985 translesion synthesis BP
GO:0022402 cell cycle process BP
GO:0022414 reproductive process BP
GO:0022616 DNA strand elongation BP
GO:0031323 regulation of cellular metabolic process BP
GO:0031324 negative regulation of cellular metabolic process BP
GO:0031326 regulation of cellular biosynthetic process BP
GO:0031327 negative regulation of cellular biosynthetic process BP
GO:0031570 DNA integrity checkpoint signaling BP
GO:0031573 mitotic intra-S DNA damage checkpoint signaling BP
GO:0031935 obsolete regulation of chromatin silencing BP
GO:0031937 obsolete positive regulation of chromatin silencing BP
GO:0031974 membrane-enclosed lumen CC
GO:0031981 nuclear lumen CC
GO:0032991 protein-containing complex CC
GO:0033043 regulation of organelle organization BP
GO:0033044 regulation of chromosome organization BP
GO:0033260 nuclear DNA replication BP
GO:0033314 mitotic DNA replication checkpoint signaling BP
GO:0033554 cellular response to stress BP
GO:0034061 DNA polymerase activity MF
GO:0034401 obsolete chromatin organization involved in regulation of transcription BP
GO:0034641 cellular nitrogen compound metabolic process BP
GO:0034645 cellular macromolecule biosynthetic process BP
GO:0034654 nucleobase-containing compound biosynthetic process BP
GO:0035822 gene conversion BP
GO:0040029 epigenetic regulation of gene expression BP
GO:0042276 error-prone translesion synthesis BP
GO:0042575 DNA polymerase complex CC
GO:0043170 macromolecule metabolic process BP
GO:0043226 organelle CC
GO:0043227 membrane-bounded organelle CC
GO:0043228 non-membrane-bounded organelle CC
GO:0043229 intracellular organelle CC
GO:0043231 intracellular membrane-bounded organelle CC
GO:0043232 intracellular non-membrane-bounded organelle CC
GO:0043233 organelle lumen CC
GO:0043254 regulation of protein-containing complex assembly BP
GO:0043596 nuclear replication fork CC
GO:0044087 regulation of cellular component biogenesis BP
GO:0044237 cellular metabolic process BP
GO:0044238 primary metabolic process BP
GO:0044249 cellular biosynthetic process BP
GO:0044260 cellular macromolecule metabolic process BP
GO:0044271 cellular nitrogen compound biosynthetic process BP
GO:0044422 obsolete organelle part CC
GO:0044424 obsolete intracellular part CC
GO:0044427 obsolete chromosomal part CC
GO:0044428 obsolete nuclear part CC
GO:0044446 obsolete intracellular organelle part CC
GO:0044454 obsolete nuclear chromosome part CC
GO:0044464 obsolete cell part CC
GO:0044773 mitotic DNA damage checkpoint signaling BP
GO:0044774 mitotic DNA integrity checkpoint signaling BP
GO:0044786 cell cycle DNA replication BP
GO:0044818 mitotic G2/M transition checkpoint BP
GO:0045004 DNA replication proofreading BP
GO:0045005 DNA-templated DNA replication maintenance of fidelity BP
GO:0045786 negative regulation of cell cycle BP
GO:0045814 negative regulation of gene expression, epigenetic BP
GO:0045892 negative regulation of DNA-templated transcription BP
GO:0045930 negative regulation of mitotic cell cycle BP
GO:0045934 negative regulation of nucleobase-containing compound metabolic process BP
GO:0046483 heterocycle metabolic process BP
GO:0048285 organelle fission BP
GO:0048518 positive regulation of biological process BP
GO:0048519 negative regulation of biological process BP
GO:0048522 positive regulation of cellular process BP
GO:0048523 negative regulation of cellular process BP
GO:0050789 regulation of biological process BP
GO:0050794 regulation of cellular process BP
GO:0050896 response to stimulus BP
GO:0051128 regulation of cellular component organization BP
GO:0051130 positive regulation of cellular component organization BP
GO:0051171 regulation of nitrogen compound metabolic process BP
GO:0051172 negative regulation of nitrogen compound metabolic process BP
GO:0051252 regulation of RNA metabolic process BP
GO:0051253 negative regulation of RNA metabolic process BP
GO:0051276 chromosome organization BP
GO:0051321 meiotic cell cycle BP
GO:0051716 cellular response to stimulus BP
GO:0051726 regulation of cell cycle BP
GO:0060255 regulation of macromolecule metabolic process BP
GO:0060966 regulation of gene silencing by RNA BP
GO:0060968 obsolete regulation of gene silencing BP
GO:0061695 transferase complex, transferring phosphorus-containing groups CC
GO:0065007 biological regulation BP
GO:0070013 intracellular organelle lumen CC
GO:0070828 heterochromatin organization BP
GO:0070868 obsolete heterochromatin organization involved in chromatin silencing BP
GO:0071704 organic substance metabolic process BP
GO:0071840 cellular component organization or biogenesis BP
GO:0071897 DNA biosynthetic process BP
GO:0080090 regulation of primary metabolic process BP
GO:0090052 regulation of pericentric heterochromatin formation BP
GO:0090053 positive regulation of pericentric heterochromatin formation BP
GO:0090230 regulation of centromere complex assembly BP
GO:0090304 nucleic acid metabolic process BP
GO:0090305 nucleic acid phosphodiester bond hydrolysis BP
GO:0097159 organic cyclic compound binding MF
GO:0097549 obsolete chromatin organization involved in negative regulation of transcription BP
GO:0098687 chromosomal region CC
GO:0098813 nuclear chromosome segregation BP
GO:0140014 mitotic nuclear division BP
GO:0140097 catalytic activity, acting on DNA MF
GO:1900049 obsolete regulation of histone exchange BP
GO:1901360 organic cyclic compound metabolic process BP
GO:1901362 organic cyclic compound biosynthetic process BP
GO:1901363 heterocyclic compound binding MF
GO:1901576 organic substance biosynthetic process BP
GO:1901987 regulation of cell cycle phase transition BP
GO:1901988 negative regulation of cell cycle phase transition BP
GO:1901990 regulation of mitotic cell cycle phase transition BP
GO:1901991 negative regulation of mitotic cell cycle phase transition BP
GO:1902275 regulation of chromatin organization BP
GO:1902292 cell cycle DNA replication initiation BP
GO:1902296 DNA strand elongation involved in cell cycle DNA replication BP
GO:1902315 nuclear cell cycle DNA replication initiation BP
GO:1902319 DNA strand elongation involved in nuclear cell cycle DNA replication BP
GO:1902494 catalytic complex CC
GO:1902679 negative regulation of RNA biosynthetic process BP
GO:1902749 regulation of cell cycle G2/M phase transition BP
GO:1902750 negative regulation of cell cycle G2/M phase transition BP
GO:1902969 mitotic DNA replication BP
GO:1902975 mitotic DNA replication initiation BP
GO:1902983 DNA strand elongation involved in mitotic DNA replication BP
GO:1903046 meiotic cell cycle process BP
GO:1903047 mitotic cell cycle process BP
GO:1903097 obsolete regulation of CENP-A containing nucleosome assembly BP
GO:1903460 mitotic DNA replication leading strand elongation BP
GO:1903506 regulation of nucleic acid-templated transcription BP
GO:1903507 negative regulation of nucleic acid-templated transcription BP
GO:1905269 positive regulation of chromatin organization BP
GO:1990234 transferase complex CC
GO:2000112 regulation of cellular macromolecule biosynthetic process BP
GO:2000113 negative regulation of cellular macromolecule biosynthetic process BP
GO:2001141 regulation of RNA biosynthetic process BP
GO:2001252 positive regulation of chromosome organization BP
KEGG Term Name Description
map03420 Nucleotide excision repair Nucleotide excision repair (NER) is a mechanism to recognize and repair bulky DNA damage caused by compounds, environmental carcinogens, and exposure to UV-light. In humans hereditary defects in the NER pathway are linked to at least three diseases: xeroderma pigmentosum (XP), Cockayne syndrome (CS), and trichothiodystrophy (TTD). The repair of damaged DNA involves at least 30 polypeptides within two different sub-pathways of NER known as transcription-coupled repair (TCR-NER) and global genome repair (GGR-NER). TCR refers to the expedited repair of lesions located in the actively transcribed strand of genes by RNA polymerase II (RNAP II). In GGR-NER the first step of damage recognition involves XPC-hHR23B complex together with XPE complex (in prokaryotes, uvrAB complex). The following steps of GGR-NER and TCR-NER are similar.
map03410 Base excision repair Base excision repair (BER) is the predominant DNA damage repair pathway for the processing of small base lesions, derived from oxidation and alkylation damages. BER is normally defined as DNA repair initiated by lesion-specific DNA glycosylases and completed by either of the two sub-pathways: short-patch BER where only one nucleotide is replaced and long-patch BER where 2-13 nucleotides are replaced. Each sub-pathway of BER relies on the formation of protein complexes that assemble at the site of the DNA lesion and facilitate repair in a coordinated fashion. This process of complex formation appears to provide an increase in specificity and efficiency to the BER pathway, thereby facilitating the maintenance of genome integrity by preventing the accumulation of highly toxic repair intermediates.
map03030 DNA replication A complex network of interacting proteins and enzymes is required for DNA replication. Generally, DNA replication follows a multistep enzymatic pathway. At the DNA replication fork, a DNA helicase (DnaB or MCM complex) precedes the DNA synthetic machinery and unwinds the duplex parental DNA in cooperation with the SSB or RPA. On the leading strand, replication occurs continuously in a 5 to 3 direction, whereas on the lagging strand, DNA replication occurs discontinuously by synthesis and joining of short Okazaki fragments. In prokaryotes, the leading strand replication apparatus consists of a DNA polymerase (pol III core), a sliding clamp (beta), and a clamp loader (gamma delta complex). The DNA primase (DnaG) is needed to form RNA primers. Normally, during replication of the lagging-strand DNA template, an RNA primer is removed either by an RNase H or by the 5 to 3 exonuclease activity of DNA pol I, and the DNA ligase joins the Okazaki fragments. In eukaryotes, three DNA polymerases (alpha, delta, and epsilon) have been identified. DNA primase forms a permanent complex with DNA polymerase alpha. PCNA and RFC function as a clamp and a clamp loader. FEN 1 and RNase H1 remove the RNA from the Okazaki fragments and DNA ligase I joins the DNA.