Basic Information
Gene Structure
Domain
Regulation&
Interaction
Annotation
Orthologus Group
Expresssion
Pathway
Basic Information
Gene ID
gene-LOC107431641
View in Genome Browser
Position
NC_063298.1:3858567-3863031 (+)
4464bp
Gene Type
gene
Gene Description (Protein Product)
DNA-(Apurinic or apyrimidinic site) lyase
Organism
Ziziphus jujuba
Also AS AT2G41460

Gene Structure

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Domain
Database EntryID E-Value Start end InterPro ID Description

Regulation&Interaction
Protein-protein interaction (PPI)
gene-LOC125423478 Bifunctional DNA N-glycosylase with associated apurinic apyrimidinic (AP) lyase function that catalyzes the first step in base excision repair (BER); the primary repair pathway for the repair of oxidative DNA damage. The DNA N-glycosylase activity releases the damaged DNA base from DNA by cleaving the N- glycosidic bond; leaving an AP site. The AP lyase activity cleaves the phosphodiester bond 3' to the AP site by a beta-elimination. Primarily recognizes and repairs oxidative base damage of pyrimidines
gene-LOC107432337 -
gene-LOC107432337 DNA polymerase delta small

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Annotation

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

Expression Profile
DataSet Number of Samples expressed(TPM>1) Mean Min Max Standard deviation(SD) Coeffcient variation(CV)


Pathway
Go Pathway KEGG Pathway
GO Term Description GO Category
GO:0003674 molecular_function MF
GO:0003824 catalytic activity MF
GO:0003906 DNA-(apurinic or apyrimidinic site) endonuclease activity MF
GO:0004518 nuclease activity MF
GO:0004527 exonuclease activity MF
GO:0004528 phosphodiesterase I activity MF
GO:0004529 DNA exonuclease activity MF
GO:0004536 deoxyribonuclease activity MF
GO:0005575 cellular_component CC
GO:0005622 intracellular anatomical structure CC
GO:0005623 obsolete cell CC
GO:0005634 nucleus CC
GO:0005737 cytoplasm CC
GO:0006139 nucleobase-containing compound metabolic process BP
GO:0006259 DNA metabolic process BP
GO:0006281 DNA repair BP
GO:0006284 base-excision repair BP
GO:0006289 nucleotide-excision repair BP
GO:0006355 regulation of DNA-templated transcription BP
GO:0006725 cellular aromatic compound metabolic process BP
GO:0006793 phosphorus metabolic process BP
GO:0006796 phosphate-containing 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:0008081 phosphoric diester hydrolase activity MF
GO:0008150 biological_process BP
GO:0008152 metabolic process BP
GO:0008296 3'-5'-DNA exonuclease activity MF
GO:0008309 double-stranded DNA exodeoxyribonuclease activity MF
GO:0008311 double-stranded DNA 3'-5' DNA exonuclease activity MF
GO:0008408 3'-5' exonuclease activity MF
GO:0009295 nucleoid CC
GO:0009507 chloroplast CC
GO:0009532 plastid stroma CC
GO:0009536 plastid CC
GO:0009570 chloroplast stroma CC
GO:0009889 regulation of biosynthetic process BP
GO:0009891 positive regulation of biosynthetic process BP
GO:0009893 positive regulation of metabolic 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:0010604 positive regulation of macromolecule metabolic process BP
GO:0010628 positive regulation of gene expression BP
GO:0016311 dephosphorylation BP
GO:0016787 hydrolase activity MF
GO:0016788 hydrolase activity, acting on ester bonds MF
GO:0016791 phosphatase activity 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:0019219 regulation of nucleobase-containing compound metabolic process BP
GO:0019222 regulation of metabolic process BP
GO:0031323 regulation of cellular metabolic process BP
GO:0031325 positive regulation of cellular metabolic process BP
GO:0031326 regulation of cellular biosynthetic process BP
GO:0031328 positive regulation of cellular biosynthetic process BP
GO:0033554 cellular response to stress BP
GO:0033683 obsolete nucleotide-excision repair, DNA incision BP
GO:0034641 cellular nitrogen compound metabolic process BP
GO:0042578 phosphoric ester hydrolase activity MF
GO:0042644 chloroplast nucleoid CC
GO:0042646 plastid nucleoid 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:0044237 cellular metabolic process BP
GO:0044238 primary metabolic process BP
GO:0044260 cellular macromolecule metabolic process BP
GO:0044422 obsolete organelle part CC
GO:0044424 obsolete intracellular part CC
GO:0044434 obsolete chloroplast part CC
GO:0044435 obsolete plastid part CC
GO:0044444 obsolete cytoplasmic part CC
GO:0044446 obsolete intracellular organelle part CC
GO:0044464 obsolete cell part CC
GO:0045893 positive regulation of DNA-templated transcription BP
GO:0045935 positive regulation of nucleobase-containing compound metabolic process BP
GO:0046483 heterocycle metabolic process BP
GO:0048518 positive regulation of biological process BP
GO:0048522 positive 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:0051171 regulation of nitrogen compound metabolic process BP
GO:0051173 positive regulation of nitrogen compound metabolic process BP
GO:0051252 regulation of RNA metabolic process BP
GO:0051254 positive regulation of RNA metabolic process BP
GO:0051716 cellular response to stimulus BP
GO:0060255 regulation of macromolecule metabolic process BP
GO:0065007 biological regulation BP
GO:0071704 organic substance metabolic process BP
GO:0080090 regulation of primary metabolic process BP
GO:0090304 nucleic acid metabolic process BP
GO:0090305 nucleic acid phosphodiester bond hydrolysis BP
GO:0140097 catalytic activity, acting on DNA MF
GO:1901360 organic cyclic compound metabolic process BP
GO:1902680 positive regulation of RNA biosynthetic process BP
GO:1903506 regulation of nucleic acid-templated transcription BP
GO:1903508 positive regulation of nucleic acid-templated transcription BP
GO:2000112 regulation of cellular macromolecule biosynthetic process BP
GO:2001141 regulation of RNA biosynthetic process BP
KEGG Term Name Description
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.
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.