Basic Information
Gene Structure
Domain
Regulation&
Interaction
Annotation
Orthologus Group
Pathway
Basic Information
Gene ID
ACNE_21331.g
View in Genome Browser
Position
acne_101:33645789-33650035 (-)
4246bp
Gene Type
gene
Gene Description (Protein Product)
This protein is an auxiliary protein of DNA polymerase delta and is involved in the control of eukaryotic DNA replication by increasing the polymerase's processibility during elongation of the leading strand
Organism
Acer negundo
Also AS

Gene Structure

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

Regulation&Interaction
Protein-protein interaction (PPI)
ACNE_23977.g DNA mismatch repair protein
ACNE_26300.g Replication factor C subunit
ACNE_23353.g DNA mismatch repair protein
Regulatory gene
ACNE_00039.g ethylene-responsive transcription factor
ACNE_00694.g ethylene-responsive transcription factor
ACNE_00867.g transcription factor

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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:0000228 nuclear chromosome CC
GO:0000278 mitotic cell cycle BP
GO:0000280 nuclear division BP
GO:0000710 meiotic mismatch repair BP
GO:0000731 DNA synthesis involved in DNA repair BP
GO:0000785 chromatin CC
GO:0000790 chromatin CC
GO:0000819 sister chromatid segregation BP
GO:0003674 molecular_function MF
GO:0003676 nucleic acid binding MF
GO:0003677 DNA binding 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:0005654 nucleoplasm 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:0006271 DNA strand elongation involved in DNA replication BP
GO:0006272 leading strand elongation BP
GO:0006273 lagging strand elongation BP
GO:0006275 regulation of DNA replication BP
GO:0006281 DNA repair BP
GO:0006289 nucleotide-excision repair BP
GO:0006298 mismatch repair BP
GO:0006301 postreplication repair BP
GO:0006325 chromatin organization BP
GO:0006342 heterochromatin formation BP
GO:0006348 subtelomeric 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:0008150 biological_process BP
GO:0008152 metabolic process BP
GO:0009058 biosynthetic process BP
GO:0009059 macromolecule biosynthetic process BP
GO:0009314 response to radiation BP
GO:0009411 response to UV BP
GO:0009416 response to light stimulus BP
GO:0009628 response to abiotic stimulus BP
GO:0009889 regulation of biosynthetic process BP
GO:0009890 negative regulation of biosynthetic process BP
GO:0009891 positive regulation of biosynthetic process BP
GO:0009892 negative regulation of metabolic process BP
GO:0009893 positive regulation of metabolic process BP
GO:0009894 regulation of catabolic process BP
GO:0009896 positive regulation of catabolic process BP
GO:0009987 cellular process BP
GO:0010468 regulation of gene expression BP
GO:0010556 regulation of macromolecule biosynthetic process BP
GO:0010557 positive regulation of macromolecule biosynthetic process BP
GO:0010558 negative regulation of macromolecule biosynthetic process BP
GO:0010604 positive regulation of macromolecule metabolic process BP
GO:0010605 negative regulation of macromolecule metabolic process BP
GO:0010629 negative regulation of gene expression BP
GO:0016043 cellular component organization BP
GO:0016070 RNA metabolic process BP
GO:0016458 obsolete gene silencing BP
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:0030234 enzyme regulator activity MF
GO:0030337 DNA polymerase processivity factor activity MF
GO:0030466 silent mating-type cassette heterochromatin formation BP
GO:0031323 regulation of cellular metabolic process BP
GO:0031324 negative regulation of cellular metabolic process BP
GO:0031325 positive regulation of cellular metabolic process BP
GO:0031326 regulation of cellular biosynthetic process BP
GO:0031327 negative regulation of cellular biosynthetic process BP
GO:0031328 positive regulation of cellular biosynthetic process BP
GO:0031329 regulation of cellular catabolic process BP
GO:0031331 positive regulation of cellular catabolic process BP
GO:0031974 membrane-enclosed lumen CC
GO:0031981 nuclear lumen CC
GO:0032069 regulation of nuclease activity BP
GO:0032070 regulation of deoxyribonuclease activity BP
GO:0032075 positive regulation of nuclease activity BP
GO:0032077 positive regulation of deoxyribonuclease activity BP
GO:0032268 regulation of protein metabolic process BP
GO:0032270 positive regulation of protein metabolic process BP
GO:0032991 protein-containing complex CC
GO:0033260 nuclear DNA replication BP
GO:0033554 cellular response to stress BP
GO:0034085 establishment of sister chromatid cohesion BP
GO:0034087 establishment of mitotic sister chromatid cohesion BP
GO:0034641 cellular nitrogen compound metabolic process BP
GO:0034644 cellular response to UV BP
GO:0034645 cellular macromolecule biosynthetic process BP
GO:0034654 nucleobase-containing compound biosynthetic process BP
GO:0035753 maintenance of DNA trinucleotide repeats BP
GO:0035861 site of double-strand break CC
GO:0040029 epigenetic regulation of gene expression BP
GO:0042176 regulation of protein catabolic process BP
GO:0042276 error-prone translesion synthesis BP
GO:0043085 positive regulation of catalytic activity BP
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:0043570 maintenance of DNA repeat elements BP
GO:0043596 nuclear replication fork CC
GO:0043626 PCNA complex CC
GO:0044093 positive regulation of molecular function 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:0044786 cell cycle DNA replication BP
GO:0044796 DNA polymerase processivity factor complex CC
GO:0045732 positive regulation of protein catabolic process BP
GO:0045814 negative regulation of gene expression, epigenetic BP
GO:0045892 negative regulation of DNA-templated transcription BP
GO:0045934 negative regulation of nucleobase-containing compound metabolic process BP
GO:0045935 positive 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:0050790 regulation of catalytic activity BP
GO:0050794 regulation of cellular process BP
GO:0050896 response to stimulus BP
GO:0051052 regulation of DNA metabolic process BP
GO:0051054 positive regulation of DNA metabolic process BP
GO:0051171 regulation of nitrogen compound metabolic process BP
GO:0051172 negative regulation of nitrogen compound metabolic process BP
GO:0051173 positive regulation of nitrogen compound metabolic process BP
GO:0051246 regulation of protein metabolic process BP
GO:0051247 positive regulation of protein 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:0051336 regulation of hydrolase activity BP
GO:0051338 regulation of transferase activity BP
GO:0051345 positive regulation of hydrolase activity BP
GO:0051347 positive regulation of transferase activity BP
GO:0051716 cellular response to stimulus BP
GO:0060255 regulation of macromolecule metabolic process BP
GO:0061982 meiosis I cell cycle process BP
GO:0065007 biological regulation BP
GO:0065009 regulation of molecular function BP
GO:0070013 intracellular organelle lumen CC
GO:0070914 UV-damage excision repair BP
GO:0070987 error-free translesion synthesis BP
GO:0071214 cellular response to abiotic stimulus BP
GO:0071478 cellular response to radiation BP
GO:0071482 cellular response to light stimulus 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:0090304 nucleic acid metabolic process BP
GO:0090329 regulation of DNA-templated DNA replication BP
GO:0090734 site of DNA damage CC
GO:0097159 organic cyclic compound binding MF
GO:0098772 molecular function regulator activity MF
GO:0098813 nuclear chromosome segregation BP
GO:0104004 cellular response to environmental stimulus BP
GO:0140014 mitotic nuclear division BP
GO:1900262 regulation of DNA-directed DNA polymerase activity BP
GO:1900264 positive regulation of DNA-directed DNA polymerase activity 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:1902296 DNA strand elongation involved in cell cycle DNA replication BP
GO:1902319 DNA strand elongation involved in nuclear cell cycle DNA replication BP
GO:1902392 regulation of exodeoxyribonuclease activity BP
GO:1902394 positive regulation of exodeoxyribonuclease activity BP
GO:1902679 negative regulation of RNA biosynthetic process BP
GO:1902969 mitotic DNA replication BP
GO:1902983 DNA strand elongation involved in mitotic DNA replication BP
GO:1903021 regulation of phosphodiesterase activity, acting on 3'-phosphoglycolate-terminated DNA strands BP
GO:1903022 positive regulation of phosphodiesterase activity, acting on 3'-phosphoglycolate-terminated DNA strands BP
GO:1903046 meiotic cell cycle process BP
GO:1903047 mitotic cell cycle process BP
GO:1903362 regulation of protein catabolic process BP
GO:1903364 positive regulation of protein catabolic process BP
GO:1903459 mitotic DNA replication lagging strand elongation 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:1905777 regulation of exonuclease activity BP
GO:1905779 positive regulation of exonuclease activity BP
GO:2000112 regulation of cellular macromolecule biosynthetic process BP
GO:2000113 negative regulation of cellular macromolecule biosynthetic process BP
GO:2000278 regulation of DNA biosynthetic process BP
GO:2000573 positive regulation of DNA biosynthetic process BP
GO:2001141 regulation of RNA biosynthetic process BP
KEGG Term Name Description
map03430 Mismatch repair DNA mismatch repair (MMR) is a highly conserved biological pathway that plays a key role in maintaining genomic stability. MMR corrects DNA mismatches generated during DNA replication, thereby preventing mutations from becoming permanent in dividing cells. MMR also suppresses homologous recombination and was recently shown to play a role in DNA damage signaling. Defects in MMR are associated with genome-wide instability, predisposition to certain types of cancer including HNPCC, resistance to certain chemotherapeutic agents, and abnormalities in meiosis and sterility in mammalian systems.
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.