ENSDARG00000027689


Danio rerio

Features
Gene ID: ENSDARG00000027689
  
Biological name :pold1
  
Synonyms : pold1 / polymerase (DNA directed), delta 1, catalytic subunit
  
Possible biological names infered from orthology : DNA polymerase delta 1, catalytic subunit / P28340 / P52431
  
Species: Danio rerio
  
Chr. number: 3
Strand: -1
Band:
Gene start: 16687830
Gene end: 16719244
  
Corresponding Affymetrix probe sets: Dr.26392.2.S1_at (Zebrafish Array)   Dr.9175.1.A1_at (Zebrafish Array)   NM_001039810_at (Zebrafish Genome Array with custom cdf files)   
  
Cross references: Ensembl peptide - ENSDARP00000055858
NCBI entrez gene - 556456     See in Manteia.
RefSeq - NM_001039810
RefSeq Peptide - NP_001034899
swissprot - B3DKJ9
ZFIN ID - ZDB-GENE-060429-1
Ensembl - ENSDARG00000027689
  
See expression report in BioGPS
See gene description in Wikigenes
See co-cited genes in PubMed


Ortholog prediction (from Ensembl)
Ortholog nameID Species
 POLD1ENSG00000062822Homo sapiens
 Pold1ENSMUSG00000038644Mus musculus


Paralog prediction (from Ensembl)
Paralog nameIDSimilarity(%)
No match


Protein motifs (from Interpro)
Interpro ID Name
 IPR006133  DNA-directed DNA polymerase, family B, exonuclease domain
 IPR006134  DNA-directed DNA polymerase, family B, multifunctional domain
 IPR006172  DNA-directed DNA polymerase, family B
 IPR012337  Ribonuclease H-like superfamily
 IPR017964  DNA-directed DNA polymerase, family B, conserved site
 IPR023211  DNA polymerase, palm domain superfamily
 IPR025687  C4-type zinc-finger of DNA polymerase delta


Gene Ontology (GO)
TypeGO IDTermEv.Code
 biological_processGO:0006260 DNA replication IMP
 biological_processGO:0006287 base-excision repair, gap-filling IBA
 biological_processGO:0006297 nucleotide-excision repair, DNA gap filling IBA
 biological_processGO:0045004 DNA replication proofreading IBA
 biological_processGO:0071897 DNA biosynthetic process IEA
 biological_processGO:0090305 nucleic acid phosphodiester bond hydrolysis IEA
 cellular_componentGO:0005634 nucleus IEA
 cellular_componentGO:0043625 delta DNA polymerase complex IBA
 molecular_functionGO:0000166 nucleotide binding IEA
 molecular_functionGO:0003676 nucleic acid binding IEA
 molecular_functionGO:0003677 DNA binding IEA
 molecular_functionGO:0003887 DNA-directed DNA polymerase activity IEA
 molecular_functionGO:0008296 3"-5"-exodeoxyribonuclease activity IBA
 molecular_functionGO:0016740 transferase activity IEA
 molecular_functionGO:0016779 nucleotidyltransferase activity IEA
 molecular_functionGO:0046872 metal ion binding IEA
 molecular_functionGO:0051536 iron-sulfur cluster binding IEA
 molecular_functionGO:0051539 4 iron, 4 sulfur cluster binding IEA


Pathways (from Reactome)
Pathway description
Recognition of DNA damage by PCNA-containing replication complex
Polymerase switching on the C-strand of the telomere
Processive synthesis on the C-strand of the telomere
Telomere C-strand (Lagging Strand) Synthesis
Removal of the Flap Intermediate from the C-strand
Mismatch repair (MMR) directed by MSH2:MSH6 (MutSalpha)
Mismatch repair (MMR) directed by MSH2:MSH3 (MutSbeta)
PCNA-Dependent Long Patch Base Excision Repair
Termination of translesion DNA synthesis
HDR through Homologous Recombination (HRR)
Gap-filling DNA repair synthesis and ligation in GG-NER
Dual Incision in GG-NER
Dual incision in TC-NER
Gap-filling DNA repair synthesis and ligation in TC-NER
Polymerase switching
Removal of the Flap Intermediate
Processive synthesis on the lagging strand


Phenotype (from MGI, Zfin or HPO)
IDPhenotypeDefinition Genetic BG
 ZFA:0000008 brain brain degenerate , abnormal
brain decreased size , abnormal
Show

 ZFA:0000095 pharyngeal arch 3-7 skeleton pharyngeal arch 3-7 skeleton quality , abnormal
pharyngeal arch 3-7 skeleton decreased size , abnormal
Show

 ZFA:0000107 eye eye decreased size , abnormal
eye quality , abnormal
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 ZFA:0000282 sensory system sensory system quality , abnormal
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 ZFA:0000354 gill gill decreased size , abnormal
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 ZFA:0000396 nervous system nervous system quality , abnormal
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 ZFA:0000445 optic tectum optic tectum necrotic , abnormal
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 ZFA:0001094 whole organism whole organism lethal (sensu genetics) , abnormal
whole organism viability , abnormal
Show

 ZFA:0001205 Meckel s cartilage Meckels cartilage decreased width , abnormal
Meckels cartilage sharp , abnormal
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 ZFA:0001227 mandibular arch skeleton mandibular arch skeleton morphology , abnormal
mandibular arch skeleton decreased size , abnormal
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 ZFA:0001228 pharyngeal arch 3 skeleton pharyngeal arch 3 skeleton decreased size , abnormal
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 ZFA:0001229 pharyngeal arch 7 skeleton pharyngeal arch 7 skeleton decreased size , abnormal
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 ZFA:0001230 pharyngeal arch 6 skeleton pharyngeal arch 6 skeleton absent , abnormal
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 ZFA:0001231 pharyngeal arch 4 skeleton pharyngeal arch 4 skeleton absent , abnormal
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 ZFA:0001232 pharyngeal arch 5 skeleton pharyngeal arch 5 skeleton absent , abnormal
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 ZFA:0001239 ceratobranchial 5 bone ceratobranchial 5 bone has fewer parts of type ceratobranchial 5 tooth , abnormal
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 ZFA:0001276 pharyngeal arch 2 skeleton pharyngeal arch 2 skeleton decreased size , abnormal
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 ZFA:0001400 ceratohyal cartilage ceratohyal cartilage mislocalised dorsally , abnormal
ceratohyal cartilage mislocalised posteriorly , abnormal
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 ZFA:0001405 ethmoid cartilage ethmoid cartilage decreased size , abnormal
ethmoid cartilage decreased width , abnormal
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 ZFA:0001580 neurocranium neurocranium decreased size , abnormal
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 ZFA:0001613 pharyngeal arch 3-7 pharyngeal arch 3-7 decreased size , abnormal
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Interacting proteins (from Reactome)
Interactor ID Name Interaction type
 ENSDARG00000003749 polb / polymerase (DNA directed), beta / P06746* / Q8K409* / DNA polymerase beta*  / reaction
 ENSDARG00000011404 fen1 / Q6TNU4 / flap structure-specific endonuclease 1 / P39748*  / complex / reaction
 ENSDARG00000003938 rpa1 / Q6NY74 / replication protein A1 / Q8VEE4* / P27694* / Replication protein A 70 kDa DNA-binding subunit *  / complex / reaction
 ENSDARG00000078759 dna2 / DNA replication helicase/nuclease 2 / P51530* / Q6ZQJ5* / DNA replication ATP-dependent helicase/nuclease DNA2 DNA replication nuclease DNA2 DNA replication ATP-dependent helicase DNA2*  / complex / reaction
 ENSDARG00000015070 pola2 / polymerase (DNA directed), alpha 2 / P33611* / Q14181* / DNA polymerase alpha 2, accessory subunit*  / complex / reaction
 ENSDARG00000079632 si:dkey-28b4.7 / POLD4* / Q9CWP8* / Q9HCU8* / AP003419.1* / polymerase (DNA-directed), delta 4* / DNA polymerase delta 4, accessory subunit*  / complex / reaction
 ENSDARG00000096578 cul4a / cullin 4A / Q13619* / Q3TCH7*  / reaction / complex
 ENSDARG00000060510 cul4b / cullin 4B / A2A432* / Q13620*  / reaction / complex
 ENSDARG00000054155 pcna / Q9PTP1 / proliferating cell nuclear antigen / P17918* / P12004* / Pcna-ps2*  / complex / reaction
 ENSDARG00000027689 pold1 / polymerase (DNA directed), delta 1, catalytic subunit / P28340* / P52431* / DNA polymerase delta 1, catalytic subunit*  / reaction
 ENSDARG00000038030 rbx1 / ring-box 1, E3 ubiquitin protein ligase / P62878* / P62877* / ring-box 1* / E3 ubiquitin-protein ligase RBX1 E3 ubiquitin-protein ligase RBX1, N-terminally processed*  / complex / reaction
 ENSDARG00000037188 rpa2 / replication protein A2 / RPA4* / Q13156* / P15927* / replication protein A4*  / reaction / complex
 ENSDARG00000023002 dtl / Q5RHI5 / denticleless E3 ubiquitin protein ligase homolog (Drosophila) / Q9NZJ0* / Q3TLR7* / Denticleless protein homolog * / denticleless E3 ubiquitin protein ligase homolog*  / complex / reaction
 ENSDARG00000052721 prim2 / DNA primase subunit 2 / P33610* / P49643* / DNA primase large subunit *  / reaction / complex
 ENSDARG00000045308 pola1 / polymerase (DNA directed), alpha 1 / P09884* / P33609* / DNA polymerase alpha 1, catalytic subunit*  / reaction / complex
 ENSDARG00000060041 lig1 / ligase I, DNA, ATP-dependent / P18858* / DNA ligase 1*  / complex / reaction






 

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