PPGR - Gene Detail

Basic Information

Gene Structure

Domain

Regulation&
Interaction

Annotation

Orthologus Group

Expresssion

Pathway

Basic Information

Gene ID	CSS0048805.g View in Genome Browser
Position	Chr11:111439203-111461491 (+) 22288bp
Gene Type	gene
Gene Description (Protein Product)	Replication factor C subunit
Organism	Camellia sinensis
Also AS	AT5G22010

upstream:

Domain

Database	EntryID	E-Value	Start	end	InterPro ID	Description

Regulation&Interaction

Protein-protein interaction (PPI)	CSS0049320.g DNA polymerase epsilon catalytic subunit CSS0049577.g Replication factor C subunit CSS0049451.g DNA polymerase
Regulatory gene	CSS0004712.g GAGA binding protein-like family CSS0007067.g Protein BASIC PENTACYSTEINE6-like CSS0008658.g Protein BASIC PENTACYSTEINE2-like

Load All Networks

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)

Select Expression

Pathway

GO Term	Description	GO Category
GO:0000003	reproduction	BP
GO:0000166	nucleotide binding	MF
GO:0000280	nuclear division	BP
GO:0000712	resolution of meiotic recombination intermediates	BP
GO:0000723	telomere maintenance	BP
GO:0000731	DNA synthesis involved in DNA repair	BP
GO:0001101	response to acid chemical	BP
GO:0003674	molecular_function	MF
GO:0003676	nucleic acid binding	MF
GO:0003677	DNA binding	MF
GO:0005488	binding	MF
GO:0005524	ATP 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:0005663	DNA replication factor C complex	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:0006278	RNA-templated DNA biosynthetic process	BP
GO:0006281	DNA repair	BP
GO:0006283	transcription-coupled nucleotide-excision repair	BP
GO:0006289	nucleotide-excision repair	BP
GO:0006296	obsolete nucleotide-excision repair, DNA incision, 5'-to lesion	BP
GO:0006297	nucleotide-excision repair, DNA gap filling	BP
GO:0006301	postreplication repair	BP
GO:0006310	DNA recombination	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:0007004	telomere maintenance via telomerase	BP
GO:0007049	cell cycle	BP
GO:0007059	chromosome segregation	BP
GO:0007127	meiosis I	BP
GO:0007131	reciprocal meiotic recombination	BP
GO:0008047	enzyme activator activity	MF
GO:0008144	obsolete drug binding	MF
GO:0008150	biological_process	BP
GO:0008152	metabolic process	BP
GO:0009058	biosynthetic process	BP
GO:0009059	macromolecule biosynthetic process	BP
GO:0009719	response to endogenous stimulus	BP
GO:0009725	response to hormone	BP
GO:0009737	response to abscisic acid	BP
GO:0009889	regulation of biosynthetic process	BP
GO:0009987	cellular process	BP
GO:0010033	response to organic substance	BP
GO:0010468	regulation of gene expression	BP
GO:0010556	regulation of macromolecule biosynthetic process	BP
GO:0010833	telomere maintenance via telomere lengthening	BP
GO:0016043	cellular component organization	BP
GO:0017076	purine nucleotide binding	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:0019725	cellular homeostasis	BP
GO:0019985	translesion synthesis	BP
GO:0022402	cell cycle process	BP
GO:0022414	reproductive process	BP
GO:0030234	enzyme regulator activity	MF
GO:0030554	adenyl nucleotide binding	MF
GO:0031056	regulation of histone modification	BP
GO:0031060	regulation of histone methylation	BP
GO:0031323	regulation of cellular metabolic process	BP
GO:0031326	regulation of cellular biosynthetic process	BP
GO:0031399	regulation of protein modification process	BP
GO:0031935	obsolete regulation of chromatin silencing	BP
GO:0031974	membrane-enclosed lumen	CC
GO:0031981	nuclear lumen	CC
GO:0032200	telomere organization	BP
GO:0032201	telomere maintenance via semi-conservative replication	BP
GO:0032268	regulation of protein metabolic process	BP
GO:0032553	ribonucleotide binding	MF
GO:0032555	purine ribonucleotide binding	MF
GO:0032559	adenyl ribonucleotide binding	MF
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:0033554	cellular response to stress	BP
GO:0033683	obsolete nucleotide-excision repair, DNA incision	BP
GO:0033993	response to lipid	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:0035639	purine ribonucleoside triphosphate binding	MF
GO:0035825	homologous recombination	BP
GO:0036094	small molecule binding	MF
GO:0042221	response to chemical	BP
GO:0042276	error-prone translesion synthesis	BP
GO:0042592	homeostatic process	BP
GO:0042769	obsolete DNA damage response, detection of DNA damage	BP
GO:0043085	positive regulation of catalytic activity	BP
GO:0043167	ion binding	MF
GO:0043168	anion binding	MF
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: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:0044464	obsolete cell part	CC
GO:0044786	cell cycle DNA replication	BP
GO:0045132	meiotic chromosome segregation	BP
GO:0046483	heterocycle metabolic process	BP
GO:0048285	organelle fission	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:0051128	regulation of cellular component organization	BP
GO:0051171	regulation of nitrogen compound metabolic process	BP
GO:0051246	regulation of protein metabolic process	BP
GO:0051252	regulation of RNA metabolic process	BP
GO:0051276	chromosome organization	BP
GO:0051304	chromosome separation	BP
GO:0051307	meiotic chromosome separation	BP
GO:0051321	meiotic cell cycle	BP
GO:0051570	regulation of histone H3-K9 methylation	BP
GO:0051606	detection of stimulus	BP
GO:0051716	cellular response to stimulus	BP
GO:0060249	anatomical structure homeostasis	BP
GO:0060255	regulation of macromolecule metabolic process	BP
GO:0060968	obsolete regulation of gene silencing	BP
GO:0061982	meiosis I cell cycle process	BP
GO:0065007	biological regulation	BP
GO:0065008	regulation of biological quality	BP
GO:0065009	regulation of molecular function	BP
GO:0070013	intracellular organelle lumen	CC
GO:0070987	error-free translesion synthesis	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:0090305	nucleic acid phosphodiester bond hydrolysis	BP
GO:0097159	organic cyclic compound binding	MF
GO:0097305	response to alcohol	BP
GO:0097367	carbohydrate derivative binding	MF
GO:0098772	molecular function regulator activity	MF
GO:0098813	nuclear chromosome segregation	BP
GO:0140013	meiotic nuclear division	BP
GO:1901265	nucleoside phosphate binding	MF
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:1901700	response to oxygen-containing compound	BP
GO:1902275	regulation of chromatin organization	BP
GO:1903046	meiotic cell cycle process	BP
GO:1903506	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
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.
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.