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Gene Dmel\DNApol-δ

General Information
Symbol	Dmel\DNApol-δ	Species	D. melanogaster
Name	DNA-polymerase-δ	Annotation symbol	CG5949
Feature type	protein_coding_gene	FlyBase ID	FBgn0263600
Gene Model Status	Current	Stock availability	6 publicly available
Also Known As	DNApol-delta
Genomic Location
Chromosome (arm)	3L	Recombination map	3-[43]
Cytogenetic map	72C1-72C1	Sequence location	3L:15,977,416..15,980,911 [-]
Genomic Maps Select View:Gene Models/EvidenceExpression/RegulationMegaViewGene Disruptions, Stocks and Reagents modENCODE GBrowse	Decorated FastA GenBankGFF Gene region Extended Gene region CDSIntronsExonsTranslationsTranscripts3' UTR5' UTR
Summary Information
Automatically generated summary See sections below for more information	The gene DNA-polymerase-δ is referred to in FlyBase by the symbol Dmel\DNApol-δ (CG5949, FBgn0263600). It is a protein_coding_gene from Drosophila melanogaster. There is experimental evidence that it has the molecular function: DNA-directed DNA polymerase activity; 3'-5'-exodeoxyribonuclease activity. There is experimental evidence that it is involved in the biological process: response to DNA damage stimulus; neurogenesis. 15 alleles are reported. The phenotype of these alleles is annotated with: mesothoracic tergum. It has one annotated transcript and one annotated polypeptide. Protein features are: DNA polymerase, palm domain; DNA-directed DNA polymerase, family B; DNA-directed DNA polymerase, family B, conserved site; DNA-directed DNA polymerase, family B, exonuclease domain; DNA-directed DNA polymerase, family B, multifunctional domain; DNA-directed DNA polymerase, family B, pol2; Ribonuclease H-like. Gene sequence location is 3L:15977416..15980911.
Recent Updates
Description	What does this section display? This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms). What does this section not display? This section does not currently display links that were removed or gene model changes.
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FB2011_10
FB2012_01	Sequence features BKN45008 BKN29129 HFA11138
All updates	Click here to see a list of all updates to this record from FB2010_08 and on.
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location 72C1-72C1   Limits computationally determined from genome sequence between P{EP}Tfb2EP572 and P{lacW}thj5C8&P{PZ}Mbs03802; Left limit from inclusion within Df(3L)Q26 (FBrf0085566) Right limit from non-inclusion within Df(3L)st-f13 (FBrf0072686)
Experimentally Determined Cytological Location
Cytogenetic map Notes References
Experimentally Determined Recombination Data
Location	3-[43]
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\DNApol-δ for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) DNApol-delta-RA FBtr0075522  NM_079375   3442   1092
Additional Transcript Data & Comments
Reported size (kB)	4 (northern blot) (Chiang and Lehman, 1995)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kDa) Length (aa) Theoretical pI RefSeq ID GenBank protein DNApol-delta-PA   FBpp0075277   124.9   1092   6.90     NP_524099   AAF49555
Additional Polypeptide Data & Comments
Reported size (kDa)	1092 (aa); 120 (kD observed); 125 (kD predicted) (Chiang and Lehman, 1995)
Comments	The DNApol-δ protein sequence contains a number of homology boxes and conserved residues that are characteristic of δ DNA polymerases. Insect cells infected with the DNApol-δ cDNA show increased DNA polymerase activity. (Peck et al., 1992)
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • DNA polymerase, palm domain (IPR023211) DNA-directed DNA polymerase, family B, conserved site (IPR017964) DNA-directed DNA polymerase, family B, pol2 (IPR004578) DNA-directed DNA polymerase, family B, exonuclease domain (IPR006133) DNA-directed DNA polymerase, family B, multifunctional domain (IPR006134) DNA-directed DNA polymerase, family B (IPR006172) Ribonuclease H-like (IPR012337)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AE014296 AAF49555   AY113526 AAM29531   BF494044   BI362207   BI362909   BI367100   BI367463   BI373256   CO311977   CO320164   CQ893385   CZ481863   EC055381   EC055997   EC056209   EC056634   EC213776   EC250367   GH748134   GH748155   GH749326   GH752250   GH753835   GH756802   GH771879   GH773064   GH773802   GH773939   GH774007   GH774300   GH775074   GH775823   GH776204   GH777389   GH787922   GH789536   GH792875   GH795135   GH797399   GH802578   GH808801   GH811131   GH811257   GH812089   GH814132   GH816576   GH817006   GH818277   GH823388   GH823659   GH830194   GH838628   GH838662   GH841102   GH844544   GH847523   GH851976   GH853108   GH853477   GH855117   GH857080   GH858445   GH859160   GH859372   GH859832   GH860997   GH871127   GH871876   GH872480   GH879084   GH882880   GH884086   GH885715   GH893211   GH895835   GH898726   GH904643   GH906895   GH907711   GH908613   GH909801   GH912576   GH920996   GH928415   GH928549   GH930511   GH930701   GH934769   GH935595   X88928 CAA61369
UniProtKB/Swiss-Prot	P54358
UniProtKB/TrEMBL
Mapped Features
Mapped Features have been reorganized, please see this article for details. Additional mapped features and mutations can be found on GBrowse or related reports. Type Symbol & Location Additional Notes References
External Data
Linkouts
Crossreferences
Expression Data
Transcript Expression
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Notes
Polypeptide Expression
mass spectroscopy Stage Tissue/Position (including subcellular localization) Reference day 7 of adulthood -- day 49 of adulthood   adult heart   (Cammarato et al., 2011)
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Notes
High-Throughput Expression Data
or
See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes. [an error occurred while processing this directive] modENCODE Temporal Expression Data (Graveley et al., 2011) FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)
Expression Clusters
	A cluster of genes with similar mRNA expression dynamics across development. (The modENCODE Consortium, 2010) mE2_34_mRNA_expression_cluster_06
External Data & Images
Linkouts
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal, with Scer\GAL41407 DNApol-δGD4216 lethal (with Df(3L)th102) DNApol-δ11 DNApol-δ14 lethal | larval stage | recessive DNApol-δI10 lethal | recessive DNApol-δ1 DNApol-δ2 DNApol-δ3 DNApol-δ4 DNApol-δ5 DNApol-δ6 DNApol-δ7 DNApol-δ8 semi-lethal | pupal stage, with Scer\GAL4pnr-MD237 DNApol-δGD4216 Other Phenotypes Allele neuroanatomy defective | larval stage, with Scer\GAL41407 DNApol-δGD4216 visible, with Scer\GAL4pnr-MD237 DNApol-δGD4216 Phenotype manifest in Allele embryonic/larval neuroblast | larval stage, with Scer\GAL41407 DNApol-δGD4216 ganglion mother cell | larval stage, with Scer\GAL41407 DNApol-δGD4216 mesothoracic tergum, with Scer\GAL4pnr-MD237 DNApol-δGD4216
Classical Alleles ( 13 )
For All Classical Alleles Show
Allele of DNApol-δ Class Mutagen Stocks Known lesion DNApol-δe04106 piggyBac transposase 1 -- DNApol-δEP3292 P-element activity 1 -- DNApol-δI10 1 -- DNApol-δ11 ethyl methanesulfonate 0 -- DNApol-δ14 P-element activity 0 Yes DNApol-δ1 ethyl methanesulfonate 0 -- DNApol-δ2 ethyl methanesulfonate 0 -- DNApol-δ3 ethyl methanesulfonate 0 -- DNApol-δ4 ethyl methanesulfonate 0 -- DNApol-δ5 ethyl methanesulfonate 0 -- DNApol-δ6 ethyl methanesulfonate 0 -- DNApol-δ7 ethyl methanesulfonate 0 -- DNApol-δ8 ethyl methanesulfonate 0 --
Alleles Carried on Transgenic Constructs ( 2 )
For All Alleles Carried on Transgenic Constructs Show
Allele of DNApol-δ Class Mutagen Stocks Known lesion DNApol-δGD4216 in vitro construct - RNAi in vitro construct - regulatory fusion 2 Yes DNApol-δKK109129 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes
Aneuploid Aberrations
Disrupted in	Df(3L)brm11 (Brizuela et al., 1994, Melendez et al., 1995, Cooper and Kennison, 2011) Df(3L)BSC443 (Cooper and Kennison, 2011) Df(3L)BSC774 (Cooper and Kennison, 2011) Df(3L)Q26 (Melendez et al., 1995) Df(3L)th102 (Brizuela et al., 1994, Cooper and Kennison, 2011) Df(3L)X-21.2 (Cooper and Kennison, 2011) Df(3L)XG5 (Cooper and Kennison, 2011)
Not disrupted in	Df(3L)A5 (Melendez et al., 1995) Df(3L)BK10 (Melendez et al., 1995) Df(3L)Brd6 (Melendez et al., 1995) Df(3L)Brd20 (Melendez et al., 1995) Df(3L)st-f13 (Melendez et al., 1995, Brizuela et al., 1994) Df(3L)th117 (Melendez et al., 1995)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data
Insertions
	Type of insertions Name Expression data miscellaneous insertions PBac{RB}DNApol-δe04106 NA insertion of mobile activating element P{EP}DNApol-δEP3292 NA
Gene Ontology: Function, Process & Cellular Component ( 12 unique terms )
Terms Based on Experimental Evidence ( 6 terms )
Molecular Function
CV term Evidence References
3'-5'-exodeoxyribonuclease activity inferred from direct assay (Aoyagi et al., 1994) DNA-directed DNA polymerase activity inferred from direct assay (Peck et al., 1992)
Biological Process
CV term Evidence References
neurogenesis inferred from mutant phenotype (Neumüller et al., 2011) response to DNA damage stimulus inferred from mutant phenotype (Ravi et al., 2009)
Cellular Component
CV term Evidence References
delta DNA polymerase complex inferred from direct assay (Peck et al., 1992) microtubule associated complex inferred from direct assay (Hughes et al., 2008)
Terms Based on Predictions or Assertions ( 8 terms )
Molecular Function
CV term Evidence References
DNA binding inferred from electronic annotation with InterPro:IPR004578, InterPro:IPR006134 (FlyBase Curators et al., 2004-) DNA-directed DNA polymerase activity inferred from sequence or structural similarity with EMBL:AY129569 (FlyBase, 1992-) non-traceable author statement (Burgers et al., 2001) nucleotide binding inferred from electronic annotation with InterPro:IPR004578, InterPro:IPR006134, InterPro:IPR006172, InterPro:IPR017964 (FlyBase Curators et al., 2004-) single-stranded DNA specific 3'-5' exodeoxyribonuclease activity non-traceable author statement (Swiss-Prot Project Members, 2001.8.20)
Biological Process
CV term Evidence References
DNA replication inferred from electronic annotation with InterPro:IPR004578, InterPro:IPR006133, InterPro:IPR006134 (FlyBase Curators et al., 2004-) lagging strand elongation non-traceable author statement (Swiss-Prot Project Members, 2001.8.20) leading strand elongation non-traceable author statement (Swiss-Prot Project Members, 2001.8.20)
Cellular Component
CV term Evidence References
delta DNA polymerase complex inferred from sequence or structural similarity with EMBL:AY129569 (FlyBase, 1992-)
Sequence Ontology: Class of Gene
	gene   nuclear_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
Protein-protein
Interacting group Assay References
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions DNApol-δ allele Gene References
External Data
Linkouts
Orthologs
Genome-wide drosophilid orthologs	Dana\GF10365 Dere\GG13508 Dgri\GH16758 Dmoj\GI13419 Dpse\GA19253 Dsim\GD12524 Dvir\GJ11779 Dwil\GK23632 Dyak\GE23127
Curated drosophilid orthologs	Dpse\GA19253
Linkouts
Stocks & Reagents
Stocks Listed in FlyBase ( 6 )
Bloomington	17109 w1118; P{EP}DNApol-δEP3292 Hip14EP3292 4110 w1118; DNApol-δI10 P{white-un4}71F/TM3, Sb1
Harvard	- PBac{RB}DNApol-δe04106
VDRC	v104788 P{KK109129}VIE-260B v41028 w1118 P{GD4216}v41028 v41027 w1118; P{GD4216}v41027
Genomic Clones ( 1 )
	BACR18K24 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 85 )
	Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see GBrowse for alignment of the cDNAs and ESTs to the gene model.
cDNA Clones, Fully Sequenced
BDGP DGC clones	RE60511
Other clones
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	AT02452 RE46712 RE47594 RE52777 RE53234
Other clones	104123 175435 EC055381 EC055997 EC056209 EC056634 EK227548 EK282557 RP003004839 RP003017154 RP003024145 RP003024671 RP003035234 RP003051062 RP003054554 RP003066167 RP003068760 RP003089178 RP003092771 RP003096026 RP003105482 RP003107282 RP003114908 RP003115424 RP003116667 RP003116838 RP003122776 RP003123277 RP003124499 RP003129382 RP003131031 RP003132809 RP003139928 RP003142104 RP003145289 RP003147297 RP003147595 RP003148230 RP003160617 RP003172037 RP003175458 RP003178719 RP003181909 RP003195497 RP003206327 RP003215061 RP003254948 RP003259232 RP003266550 RP003269174 RP003275156 RP003282785 RP003302265 RP003305302 RP003307535 RP003353265 RP003388143 RP003423164 RP003427320 RP003440934 RP003441613 RP003456167 RP003458806 RP003470150 RP003475474 RP003494696 RP003502068 RP003514205 RP003521686 RP003523094 RP003537611 RP003552445 RP003554172 RP003588783 RP003612850 RP003638622 RP003648031 RP003651055 RP003671725
RNAi & Array Information
Linkouts
Antibody Information
	polyclonal (Chiang and Lehman, 1995)
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of
Source for database merge of	Source for merge of: DNApol-δ l(3)72Ac (Cooper and Kennison, 2011)
Additional comments
Other Comments
	The 'l(3)72Ac' (DNApol-δ) complementation group comprises 13 EMS-induced mutant alleles. (Cooper and Kennison, 2011) Cloning and characterisation of DNApol-δ reveals the amino acid sequence is very highly conserved. (Chiang and Lehman, 1995) Subunits of DNA polymerase α and δ are purified from embryos and characterised. (Mitsis et al., 1995) DNA polymerase δ has been isolated to near homogeneity from early embryos of D.melanogaster. The enzyme is composed of two polypeptides, which are 138kD and 47kD in size. The enzyme responds to mouse PCNA and has proofreading nuclease activity. (Aoyagi et al., 1994) DNApol-δ has been purified from 0-2hr embryos, it consists of a 120kD polypeptide and, unlike mammalian Polδ, is unresponsive to proliferating cell nuclear antigen (PCNA). (Chiang et al., 1993) Mono Q anion exchange chromatography used to resolve DNA polymerase activities in 0-2.5hr embryos. DNApol-δ and DNApol-α180 distinguished by copurification with DNAprimase (DNApol-α180) or 3'-5'exonuclease activity (DNApol-δ), immunoblot analysis with DNApol-α specific antibodies, sensitivity to aphidicolin (both DNApol-α180 and DNApol-δ sensitive) and BuPdGTP (DNApol-α180 more sensitive), and processivity measurements with and without PCNA (DNApol-δ has PCNA-inducible high processivity). (Peck et al., 1992)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_079375 RefSeq (Proteins) • NP_524099 DDBJ / EMBL / GenBank • AAF49555 AAM29531 AY113526 BI373256 CAA61369 CQ893385 CZ481863 X88928 Entrez Gene - A searchable database of RefSeq genes. • 39746 UniProtKB/Swiss-Prot • P54358
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • DNA polymerase, palm domain (IPR023211) DNA-directed DNA polymerase, family B, conserved site (IPR017964) DNA-directed DNA polymerase, family B, pol2 (IPR004578) DNA-directed DNA polymerase, family B, exonuclease domain (IPR006133) DNA-directed DNA polymerase, family B, multifunctional domain (IPR006134) DNA-directed DNA polymerase, family B (IPR006172) Ribonuclease H-like (IPR012337)
Linkouts
Synonyms & Secondary IDs ( 12 )
Reported As
Symbol Synonym	5949 (Ravi et al., 2009) CAA61369 (Burgers et al., 2001) CG5949 (Cammarato et al., 2011, Dimova et al., 2003, Keleman et al., 2009.8.5, Hughes et al., 2008) Dm Polδ (Chiang and Lehman, 1995) DNApol-delta (Cooper and Kennison, 2011, Arancio et al., 2010, Li and White, 2003, Giot et al., 2003) DNA Pol Delta (Stowers and Isacoff, 2007) DNApol-δ (Cayirlioglu et al., 2003) l(3)72Ac (Cooper and Kennison, 2011, )
Name Synonym	DNA-polymerase-delta (Cammarato et al., 2011) DNA polymerase delta (Chiang, 1995.6.19) DNA-polymerase-δ (Peck et al., 1992, ) DNApol-δ (Nie et al., 2009) lethal (3) 72Ac
Secondary FlyBase IDs
	FBgn0004714 FBgn0012066 FBgn0012067
References ( 39 )
Generate a list of	All references relating to this gene ( 39 )
List References by type	Research paper  ( 17 ) Supplementary material  ( 5 ) Review  ( 2 ) Personal communication to FlyBase  ( 4 ) Abstract  ( 1 ) FlyBase analysis  ( 1 ) DNA/RNA sequence record  ( 1 ) Patent  ( 1 ) Protein sequence record  ( 1 ) Computer file  ( 3 ) Automatic genome annotation  ( 1 ) Curated genome annotation  ( 1 ) Book  ( 1 )
Recent research papers ( 2 )
	Cooper and Kennison, 2011, PLoS ONE 6(8): e23509 Molecular Genetic Analyses of Polytene Chromosome Region 72A-D in Drosophila melanogaster Reveal a Gene Desert in 72D. [FBrf0214748] Arancio et al., 2010, Genetics 185(1): 129--140 The nucleosome remodeling factor ISWI functionally interacts with an evolutionarily conserved network of cellular factors. [FBrf0213976] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2010 Show reviews ...