A Database of Drosophila Genes & Genomes

FB2008_07, released August 8, 2008
 

Gene Dmel\tam

General Information
SymbolDmel\tamSpeciesD. melanogaster
NametamasAnnotation symbolCG8987
Feature typeprotein_coding_geneFlyBase IDFBgn0004406
Created / Updated2003-12-01/2003-12-01
Genomic Location
Chromosome (arm)2LRecombination map2-
Cytogenetic map34D1-34D1Sequence location2L:13,823,980..13,827,793 [-]
Map ( GBrowse ) detailed view
hide Summary Information
Automatically generated summary

See sections below for more information
The gene tamas is referred to in FlyBase by the symbol tam (CG8987, FBgn0004406). It has the cytological map location 34D1. Its sequence location is 2L:13823980..13827793. Its molecular function is described as: DNA-directed DNA polymerase activity; 3'-5'-exodeoxyribonuclease activity; DNA binding. It is involved in the biological processes: DNA-dependent DNA replication; determination of adult life span; eclosion; mitochondrial DNA replication. 18 alleles are reported. The phenotypes of these alleles are annotated with 13 unique terms, many of which group under: adult segment; peripheral nervous system; organ system; nervous system; adult mesothoracic segment; adult; thoracic segment; cuticle; cytoplasmic part; imaginal precursor; adult cuticle. It has one annotated transcript and one annotated polypeptide.

hide Phenotypic Description from the Red Book (Lindsley & Zimm 1992)
Gene/Allele symbols may differ from current usage
l(2)34Dc
l(2)34Dc3 produces about 1% escapers in heterozygous combination with both l(2)34Dc1 and l(2)34Dc2.
hide Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map
Evidence for location
34D1-34D1  
Limits computationally determined from genome sequence between P{lacW}Sosk05224&P{lacW}RpII33k05605 and P{lacW}l(2)34Fak00811&P{PZ}wb09437  
Experimentally Determined Cytological Location
Cytogenetic map
Notes
References
34D-34E
 
(Kaguni, 1996.6.27)
34D-34E
(determined by in situ hybridisation)  
(Lewis et al., 1996)
34D4-34D4
 
(Bonfini et al., 1992)
Experimentally Determined Recombination Data
Location
2-
(Kaguni, 1996.6.27)
Left of (cM)
Right of (cM)
Notes
Deletion-mapped to between b and Sop2 or Orc5.
(Ashburner et al., 1999)
Molecular Map Data
Gene Order (in direction of increasing cytology)
References
In direction of increasing cytology: b+ tam- Sop2-
(Ashburner et al., 1999)
Gene Order (overall orientation not stated)
References
Overall orientation not stated: anon-34Da? Sos? b? tam?
(Bonfini et al., 1992)
Overall orientation not stated: RpII33- DNApol-γ35+ Orc5- Sop2+ Orc5- Sop2+ tam+
(Lefai et al., 2000)
hide Gene Model & Products
Please see the GBrowse view of Dmel\tam for information on other features
detailed view FBtr0080542 FBtr0080571 FBtr0080543 FBtr0080570 FBtr0080569 FBpp0080119 FBpp0080148 FBpp0080147 FBpp0080146 FBti0037831 FBti0051719 FBti0067095
Comments on Gene Model
hide Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Associated CDS (aa)
tam-RA
FBtr0080571
 NM_057473
  3700
  1145
Additional Transcript Data & Comments
Reported size (kB)
3.7 (longest cDNA)
(Lewis et al., 1996)
Comments
External Data
Crossreferences
hide Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kD)
Length (aa)
Theoretical pI
RefSeq ID
GenBank protein
tam-PA  
FBpp0080148  
129.8  
1145  
7.49  
  NP_476821
  AAF53338
Additional Polypeptide Data & Comments
Reported size (kD)
125 (kD)
(Kaguni et al., 1988, Wernette et al., 1988, Wernette and Kaguni, 1986)
1145 (aa); 128.6 (kD predicted)
(Lewis et al., 1996)
Comments
External Data
Linkouts
PANTHER - Protein classification by function, families, and pathways
•
Crossreferences
InterPro domains - A database of protein families, domains, and functional sites
•
DNA-directed DNA polymerase, family A (IPR001098)
DNA-directed DNA-polymerase, family A, mitochondria (IPR002297)
MitoDrome - A database of annotated Dmel nuclear genes encoding mitochondrial proteins
•
  • MTDROME08987
hide Sequences Consistent with the Gene Model
DDBJ /
EMBL /
GenBank
DNA sequence
Protein sequence
Name
AA263336
 
AA538934
 
AA816552
 
AC092223
 
AE003408
AAF44822
 
AE003641
AAF53338
 
AI519712
 
AI532074
 
AI533851
 
AI541942
 
AY089226
AAL89964
 
BF493871
 
BF496255
 
BG633819
 
BI215517
 
BI215799
 
BI371974
 
BI371992
 
BI372260
 
BI580490
 
BI641230
 
BI641930
 
BI641937
 
BI641938
 
CZ481919
 
EC052581
 
EC053089
 
EC053964
 
EC054327
 
EC055101
 
EC055489
 
EC055512
 
EC055652
 
EC081035
 
EL883264
 
L39629
 
U60298
AAC47290
 
U62547
AAC47658
 
 
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL
    Maps to
    (Ropp and Copeland, 1996, Ashburner et al., 1999.10.12, Iyengar et al., 1999)
    (FlyBase, 1992-)
    Does NOT map to
    Identified with
    (BDGP Project Members, 2000-)
    (Ashburner et al., 1999.10.12)
    (Ashburner et al., 1999, Ashburner et al., 1999.10.12)
    hide Mapped Features & Mutations
    Please see GBrowse or insertion reports for information on insertions of transgenic constructs and features not listed here
    Type
    Symbol & Location
    Additional Notes
    References
    deletion
    tam[4]
    2L:13,824,376..13,824,376
    comment=Mutation is a 1 bp deletion just after conserved DNA polymerase domain Z and results in a frameshift of the rest of the protein.
    evidence=experimental
    (Iyengar et al., 1999)
    deletion
    tam[3]
    2L:13,824,320..13,824,323
    comment=Mutation is a 5bp deletion just after conserved DNA polymerase domain Z and results in a frameshift of the rest of the protein.
    evidence=experimental
    (Iyengar et al., 1999)
    point mutation
    tam[9]
    2L:13,825,908..13,825,908
    evidence=experimental
    na_change=A13825908C
    pr_change=E595A|tam-PA
    reported_na_change=A1783C
    reported_pr_change=E595A
    (Iyengar et al., 1999)
    point mutation
    tam[2]
    2L:13,825,199..13,825,199
    evidence=experimental
    na_change=A13825199T
    pr_change=E813V|tam-PA
    reported_na_change=A2440T
    reported_pr_change=E813V
    (Iyengar et al., 1999)
    hide External Data
    Linkouts
    DEDB - Drosophila exon database: splicing graphs
    •
    Crossreferences
    hide Expression Data
    FlyBase-Curated Data
    Transcript and
    Protein data     		Please see the FlyBase Gene Expression Report for details of gene expression from the literature.
    hide Summary of Transcript Expression
    Stage
    Tissue/Position
    Reference
    Marker for
      Subcellular Localization
      CV Term
      hide Summary of Polypeptide Expression
      Stage
      Tissue/Position
      Reference
      Marker for
        Subcellular Localization
        CV Term
        hide External Data & Images
        Linkouts
        FLIGHT - Cell culture data for RNAi and other high-throughput technologies
        •
        FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
        •
        GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies
        •
        hide Alleles & Phenotypes
        hide Summary of Allele Phenotypes
        Lethality
        Allele
        viable | poor
        lethal | recessive
        lethal | larval stage | recessive
        Other Phenotypes
        Allele
        visible | recessive
        locomotor behavior defective | larval stage
        locomotor behavior defective | larval stage | recessive
        neuroanatomy defective (with tam2)
        neuroanatomy defective (with tam9)
        Phenotype manifest in
        Allele
        macrochaeta, with Scer\GAL4444
        pupal cuticle, with Scer\GAL4444
        eye, with Scer\GAL4hs.PB
        mesothoracic tergum, with Scer\GAL4hs.PB
        wing, with Scer\GAL4hs.PB
        leg, with Scer\GAL4hs.PB
        macrochaeta, with Scer\GAL4hs.PB
        wing margin bristle, with Scer\GAL4hs.PB
        adult cuticle, with Scer\GAL4hs.PB
        adult cuticle
        leg
        macrochaeta
        eye
        head bristle
        adult thorax & macrochaeta
        mitochondrion (with tam9)
        eye disc
        photoreceptor cell
        photoreceptor cell & axon
        mitochondrion (with tam2)
        scutum & macrochaeta
        wing
        wing vein
        hide Classical Alleles ( 14 )
        For All Classical Alleles Show

        Allele of tamClassMutagenStocksKnown lesion
        tam10hypomorph
          		0 --
          tam10 --
          tam20 Yes
          tam32 Yes
          tam40 Yes
          tam50 --
          tam60 --
          tam70 --
          tam80 --
          tam90 --
          tamC021
            		0 --
            tame041600 --
            tamf07705
              		0 --
              tamunspecified
                		0 --
                hide Alleles Carried on Transgenic Constructs ( 4 )
                For All Alleles Carried on Transgenic Constructs Show

                Allele of tamClassMutagenStocksKnown lesion
                tamGD15492 Yes
                tamγ125.MtnA0 Yes
                tamγ125.Scer\UAS0 Yes
                tamγ125.hs0 Yes
                hide Aneuploid Aberrations
                Useful deficiency
                 
                Useful duplication
                 
                Disrupted in
                (Iyengar et al., 1999, Woodruff and Ashburner, 1979)
                (Christensen and Cook, 2007.3.22)
                (Ryder, 2004.4.26)
                (Gubb et al., 1990)
                (Roote, 1996.8)
                (Gubb et al., 1985)
                (Gubb et al., 1984)
                (Gubb et al., 1984)
                (Woodruff and Ashburner, 1979, Gubb et al., 1990)
                (Iyengar et al., 1999, Iyengar et al., 2002)
                (Roote, 2000.7.3, Roote, 1995.3.27, Roote, 1997.6.3)
                (Bonfini et al., 1992)
                (Iyengar et al., 1999)
                (Iyengar et al., 1999, Roote, 2000.7.3, Roote, 1995.3.27, Alexandrova et al., 1996, Roote, 1997.6.3)
                (Alexandrova et al., 1996)
                (Iyengar et al., 1999, Roote, 2000.7.3, Roote, 1995.3.27, Roote, 1997.6.3)
                (Ashburner et al., 1982)
                (Ashburner et al., 1982)
                (Iyengar et al., 1999, Roote, 1995.3.27, Roote, 1997.6.3)
                (Roote, 1997.6.3)
                (Iyengar et al., 1999, Roote, 1997.6.3)
                (Iyengar et al., 1999, Bonfini et al., 1992, Roote, 1995.3.27, Roote, 1997.6.3)
                (Bonfini et al., 1992)
                (Roote, 1998.5.15)
                Not disrupted in
                (Ashburner et al., 1982)
                (Ashburner et al., 1982)
                (Ashburner et al., 1982)
                (Ashburner et al., 1982)
                (Ashburner et al., 1982)
                (Ashburner et al., 1982)
                (Ashburner et al., 1982)
                (Ashburner et al., 1982)
                (Ashburner et al., 1982)
                (Ashburner et al., 1982)
                (Ashburner et al., 1982)
                (Ashburner et al., 1982)
                (Ashburner et al., 1982)
                (Ashburner et al., 1982)
                (Ashburner et al., 1982)
                (Ashburner et al., 1982)
                (Ashburner et al., 1982, Gubb et al., 1990)
                (Ashburner et al., 1982, Gubb et al., 1990)
                (Ashburner et al., 1982)
                (Ashburner et al., 1982)
                (Gubb et al., 1990)
                (Woodruff and Ashburner, 1979)
                (Gubb et al., 1985)
                (Gubb et al., 1985)
                (Gubb et al., 1985)
                (Gubb et al., 1985)
                (Gubb et al., 1985)
                (Gubb et al., 1985)
                (Gubb et al., 1985)
                (Gubb et al., 1985)
                (Gubb et al., 1985)
                (Gubb et al., 1985)
                (Gubb et al., 1985)
                (Gubb et al., 1985)
                (Gubb et al., 1984)
                (Gubb et al., 1984)
                (Gubb et al., 1984)
                (Gubb et al., 1984)
                (Gubb et al., 1984)
                (Gubb et al., 1984)
                (Gubb et al., 1984)
                (Gubb et al., 1984)
                (Gubb et al., 1984)
                (Gubb et al., 1984)
                (Gubb et al., 1984)
                (Woodruff and Ashburner, 1979)
                (Roote, 2000.7.3)
                (Woodruff and Ashburner, 1979)
                (Woodruff and Ashburner, 1979, Ashburner et al., 1982)
                (Woodruff and Ashburner, 1979, Ashburner et al., 1982)
                (Ashburner et al., 1982)
                (Woodruff and Ashburner, 1979, Ashburner et al., 1982)
                (Ashburner et al., 1982)
                (Ashburner et al., 1982)
                (Woodruff and Ashburner, 1979, Ashburner et al., 1982)
                (Ashburner et al., 1982)
                (Ashburner et al., 1982)
                (Woodruff and Ashburner, 1979, Ashburner et al., 1982)
                (Woodruff and Ashburner, 1979)
                (Woodruff and Ashburner, 1979)
                (Gubb et al., 1985)
                (Iyengar et al., 1999)
                (Iyengar et al., 1999)
                (Roote, 1997.2.3)
                (Woodruff and Ashburner, 1979)
                (Woodruff and Ashburner, 1979)
                (Woodruff and Ashburner, 1979)
                (Woodruff and Ashburner, 1979)
                (Ashburner et al., 1982)
                hide Transgenic Constructs & Insertions
                Transgenic Constructs
                Type of construct
                Name
                Expression data
                UAS construct
                P{GD1549}
                NA
                P{UAS-γ125}
                NA
                heat-shock construct
                P{hs-γ125}
                NA
                Insertions
                Type of insertions
                Name
                Expression data
                miscellaneous insertions
                PBac{3HPy+}tamC021
                NA
                PBac{RB}tame04160
                NA
                PBac{WH}tamf07705
                NA
                hide Related Comments
                Please look at the allele reports for the complete phenotype data
                DNApol-γ125 and DNApol-γ35 have been isolated and purified and their subunit structure and catalytic properties examined.
                (Wernette and Kaguni, 1986)
                Comparison of the rate and specificity of DNA synthesis by DNApol-γ125 and DNApol-γ35 on several template primers, and an examination of the products of DNA synthesis has been carried out.
                (Wernette et al., 1988)
                The 3' to 5' exonuclease encoded provides a proof-reading function to enhance the fidelity of DNA synthesis during mitochondrial DNA replication.
                (Kaguni and Olson, 1989)
                A structural and mechanistic analysis of DNApol-γ125 and DNApol-γ35 demonstrates them to be both effective and accurate in the synthesis of DNA.
                (Kaguni et al., 1988)
                The rate and processivity of DNA synthesis by DNA polymerase γ has been analysed under a variety of different conditions.
                (Williams et al., 1993)
                mtSSB stimulates DNA polymerase γ activity in vitro.
                (Williams and Kaguni, 1995)
                Subunit structure and enzymatic activity of DNA polymerase γ are studied using a combination of physical and immunological approaches. The role of the 2 subunits in template primer DNA binding is explored.
                (Olson et al., 1995)
                Cloning and biochemical characterisation of tam demonstrates both 5' to 3' DNA polymerase activity and 3' to 5' exonuclease activity in the recombinant protein. tam polypeptide amino acid sequence is 1145 residues, with a predicted molecular mass of 129.9kD.
                (Lewis et al., 1996)
                hide Gene Ontology: Function, Process & Cellular Component ( 9 )
                hide Molecular Function
                CV term
                Evidence
                References
                3'-5'-exodeoxyribonuclease activity
                non-traceable author statement
                (Swiss-Prot Project Members, 1997.2.1)
                DNA binding
                inferred from electronic annotation with InterPro:IPR001098, InterPro:IPR002297
                (FlyBase Curators et al., 2004-)
                DNA-directed DNA polymerase activity
                inferred from direct assay
                (Wernette and Kaguni, 1986)
                inferred from sequence or structural similarity
                (Ashburner et al., 1999)
                non-traceable author statement
                (Burgers et al., 2001)
                inferred from sequence or structural similarity with UniProtKB:P54098
                (Sardiello et al., 2003.6.11)
                hide Biological Process
                CV term
                Evidence
                References
                DNA-dependent DNA replication
                inferred from direct assay
                (Wernette and Kaguni, 1986)
                non-traceable author statement
                (Burgers et al., 2001)
                non-traceable author statement
                (Swiss-Prot Project Members, 1997.2.1)
                inferred from sequence or structural similarity with UniProtKB:P54098
                (Sardiello et al., 2003.6.11)
                determination of adult life span
                non-traceable author statement
                (Mandavilli et al., 2002)
                eclosion
                non-traceable author statement
                (Mandavilli et al., 2002)
                mitochondrial DNA replication
                traceable author statement