A Database of Drosophila Genes & Genomes

FB2008_07, released August 8, 2008
 

Gene Dmel\Lim1

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General Information
SymbolDmel\Lim1SpeciesD. melanogaster
NameAnnotation symbolCG11354
Feature typeprotein_coding_geneFlyBase IDFBgn0026411
Created / Updated2003-12-01/2003-12-01
Genomic Location
Chromosome (arm)XRecombination map
Cytogenetic map8A5-8B2Sequence locationX:8,651,268..8,699,808 [-]
Map ( GBrowse ) detailed view
hide Summary Information
Automatically generated summary

See sections below for more information
This gene is referred to in FlyBase by the symbol Lim1 (CG11354, FBgn0026411). It has the cytological map location 8A5-8B2. Its sequence location is X:8651268..8699808. Its molecular function is described as: transcription factor activity; zinc ion binding; sequence-specific DNA binding. It is involved in the biological processes: imaginal disc-derived leg morphogenesis; leg disc proximal/distal pattern formation; regulation of transcription, DNA-dependent. 24 alleles are reported. The phenotypes of these alleles are annotated with 16 unique terms, many of which group under: adult segment; appendage segment; thoracic segment; adult; metatarsus; antennal segment; peripheral nervous system; mouthpart; nervous system; unguis; adult mesothoracic segment. It has one annotated transcript and one annotated polypeptide.

External Summaries

hide Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map
Evidence for location
8A5-8B2  
Limits computationally determined from genome sequence between P{EP}CG1632EP1583 and P{EP}MoeEP1652  
Experimentally Determined Cytological Location
Cytogenetic map
Notes
References
8B3-8B4
(determined by in situ hybridisation)  
(Pueyo et al., 2000)
8B1-8B2
Map location determined by cytology and deficiency analysis.  
(Lilly and Botas, 1999)
8B-8B
(determined by in situ hybridisation)  
(Lilly et al., 1999)
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Molecular Map Data
Gene Order (in direction of increasing cytology)
References
Gene Order (overall orientation not stated)
References
hide Gene Model & Products
Please see the GBrowse view of Dmel\Lim1 for information on other features
detailed view FBtr0071279 FBpp0071216 FBti0042309 FBti0053521 FBti0059225 FBti0055638
Comments on Gene Model
hide Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Associated CDS (aa)
Lim1-RA
FBtr0071279
 NM_132277
  3077
  505
Additional Transcript Data & Comments
Reported size (kB)
Comments
External Data
Crossreferences
hide Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kD)
Length (aa)
Theoretical pI
RefSeq ID
GenBank protein
Lim1-PA  
FBpp0071216  
54.8  
505  
6.95  
  NP_572505
  AAF46413
Additional Polypeptide Data & Comments
Reported size (kD)
Comments
External Data
Linkouts
PANTHER - Protein classification by function, families, and pathways
•
Crossreferences
InterPro domains - A database of protein families, domains, and functional sites
•
Homeobox (IPR001356)
Zinc finger, LIM-type (IPR001781)
Homeodomain-like (IPR009057)
Homeodomain-related (IPR012287)
hide Sequences Consistent with the Gene Model
DDBJ /
EMBL /
GenBank
DNA sequence
Protein sequence
Name
AA941899
 
AB034690
BAA86224
 
AE003445
AAF46413
 
AF181631
 
AI064485
 
AI401981
 
AI531649
 
AI543496
 
AJ571557
 
AJ571558
 
AJ571559
 
AJ571560
 
AJ571561
 
AJ571562
 
AJ571563
 
AJ571564
 
AJ571565
 
AJ571566
 
AJ571567
 
AJ571568
 
AJ571569
 
AJ571570
 
AJ571571
 
AJ571572
 
AJ571573
 
AJ571574
 
AJ571575
 
AJ571576
 
AJ571577
 
AJ571578
 
AJ571579
 
AJ571580
 
BE977715
 
BG639583
 
BG640743
 
BI638822
 
BI639514
 
CO291169
 
CO334046
 
CZ486634
 
CZ486635
 
CZ490218
 
DQ450263
 
DQ450264
 
DQ450265
 
DQ450266
 
DQ450267
 
DQ450268
 
DQ450269
 
DQ450270
 
DQ450271
 
DQ450272
 
DQ450273
 
DQ450274
 
DQ450275
 
DQ450276
 
DQ450277
 
DQ450278
 
EC070603
 
EC089846
 
EC089958
 
EC228218
 
EC239834
 
EC251328
 
SD02847
 
 
UniProtKB/Swiss-Prot
    UniProtKB/TrEMBL
    Maps to
    (Pueyo et al., 2000)
    Does NOT map to
    Identified with
    (Tsuji et al., 2000, Pueyo et al., 2000)
    (Pueyo et al., 2000)
    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
    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 Microarray Data
        Developmental timecourse, Costello et al., 2008 (Original data from Arbeitman et al., 2002)
        Untitled Document detailed view FBtr0071279
        AI064485
        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
        lethal
        lethal | pupal stage
        lethal | pharate adult stage | recessive
        Other Phenotypes
        Allele
        wild-type
        visible | recessive
        locomotor behavior defective | recessive
        Phenotype manifest in
        Allele
        unguis
        antenna
        arista
        femur
        coxa
        tibia
        larva
        sternopleural bristle
        vibrissae
        mouthpart
        antennal segment 3
        tarsal segment 4, with Scer\GAL4ap-md544
        tarsal segment, with Scer\GAL4ap-md544
        tarsal segment, with Scer\GAL430A
        tarsal segment 1, with Scer\GAL4dpp.blk1
        tarsal segment 2, with Scer\GAL4dpp.blk1
        tarsal segment 3, with Scer\GAL4dpp.blk1
        femur, with Scer\GAL4dpp.blk1
        tibia, with Scer\GAL4dpp.blk1
        unguis, with Scer\GAL4dpp.blk1
        hide Classical Alleles ( 21 )
        For All Classical Alleles Show

        Allele of Lim1ClassMutagenStocksKnown lesion
        Lim17B20 Yes
        Lim1E12
          		0 --
          Lim1E4loss of function0 --
          Lim1E8
            		0 --
            Lim1E9loss of function2 --
            Lim1P00920 Yes
            Lim1R10.60 Yes
            Lim1R12.40 Yes
            Lim1R16.30 --
            Lim1R2.30 Yes
            Lim1R20.20 --
            Lim1R21.30 --
            Lim1R32.10 Yes
            Lim1R35.20 --
            Lim1R36.50 --
            Lim1R6.20 --
            Lim1R6.30 --
            Lim1R6.60 --
            Lim1R8.10 Yes
            Lim1f040872 --
            Lim1f074691 --
            hide Alleles Carried on Transgenic Constructs ( 3 )
            For All Alleles Carried on Transgenic Constructs Show

            Allele of Lim1ClassMutagenStocksKnown lesion
            Lim1GD43721 Yes
            Lim1Scer\UAS.cTa0 Yes
            Lim1Scer\UAS.cTb0 Yes
            hide Aneuploid Aberrations
            Useful deficiency
             
            Useful duplication
             
            Disrupted in
            (Ryder, 2004.4.26)
            (Lilly et al., 1999)
            (Lilly et al., 1999)
            Not disrupted in
            (Lilly et al., 1999)
            Duplicated in
            (Lilly and Botas, 1999)
            (Lilly and Botas, 1999)
            (Lilly and Botas, 1999)
            (Lilly and Botas, 1999)
            (Lilly and Botas, 1999)
            hide Transgenic Constructs & Insertions
            Transgenic Constructs
            Type of construct
            Name
            Expression data
            UAS construct
            P{GD4372}
            NA
            P{UAS-Lim1.Th}
            NA
            P{UAS-Lim1.T}
            NA
            Insertions
            Type of insertions
            Name
            Expression data
            miscellaneous insertions
            PBac{WH}Lim1f04087
            NA
            PBac{WH}Lim1f07469
            NA
            insertion of enhancer trap
            P{lArB}Lim1P0092
            No
            hide Related Comments
            Please look at the allele reports for the complete phenotype data
            hide Gene Ontology: Function, Process & Cellular Component ( 7 )
            hide Molecular Function
            CV term
            Evidence
            References
            sequence-specific DNA binding
            inferred from electronic annotation with InterPro:IPR001356
            (FlyBase Curators et al., 2004-)
            transcription factor activity
            inferred from sequence or structural similarity with EMBL:AY339649
            (FlyBase, 1992-)
            zinc ion binding
            inferred from electronic annotation with InterPro:IPR001781
            (FlyBase Curators et al., 2004-)
            hide Biological Process
            CV term
            Evidence
            References
            imaginal disc-derived leg morphogenesis
            inferred from mutant phenotype
            (Tsuji et al., 2000)
            leg disc proximal/distal pattern formation
            inferred from mutant phenotype
            (Pueyo et al., 2000)
            regulation of transcription, DNA-dependent
            inferred from sequence or structural similarity with EMBL:AY339649
            (FlyBase, 1992-)
            hide Cellular Component
            CV term
            Evidence
            References
            nucleus
            inferred from sequence or structural similarity with MGD:Lhx1; MGI:MGI:99783
            (FlyBase, 1992-)
            hide Sequence Ontology: Class of Gene
            protein_coding_gene
             
            nuclear_gene
             
            hide Interactions & Pathways
            hide Summary of Genetic Interactions
            Interacts with
            Please look at the allele data for full details of the genetic interactions
            Lim1 allele
            Gene
            References
            Lim17B2
            al
            (Tsuji et al., 2000)
            Lim1R12.4
            al
            (Pueyo et al., 2000)
            Lim1Scer\UAS.cTb
            al
            (Pueyo et al., 2000)
            B
            (Pueyo and Couso, 2004)
            hide External Data
            Linkouts
            BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions
            •
            hide Orthologs
            Genome-wide drosophilid orthologs
            Curated drosophilid orthologs
             
             
            Linkouts
            InParanoid orthologs - Eukaryotic orthologs
            •
            hide Functional Complementation between Species
            hide Inter-Species Misexpression Data
            Produces phenotype in
            Produces NO phenotype in
            hide Stocks & Reagents
            hide Stocks Listed in FlyBase ( 6 )
            Harvard
            -
            PBac{WH}Lim1f04087
            -
            PBac{WH}Lim1f07469
            VDRC
            v13996
            w1118; P{GD4372}v13996
            Bloomington
            18729
            w1118 PBac{WH}Lim1f04087/FM7c
            5677
            Dp(1;Y)578, y+ BS/y1 Lim1E9 f36a/C(1)DX, y1 f1
            Kyoto
            108357
            Dp(1;Y)578, y+ BS/y1 Lim1E9 f36a/C(1)DX, y1 f1
            hide Genomic Clones ( 2 )
            hide cDNA Clones ( 10 )
            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
            Other clones
            cDNA Clones, End Sequenced (ESTs)
            BDGP DGC clones
            Other clones
            hide RNAi & Array Information
            Affy Oligo
            Linkouts
            DRSC - RNAi screening (Harvard): high-throughput cell culture data and design
            •
            GenomeRNAi - RNAi phenotypes (Heidelberg): high-throughput cell culture data
            •
            hide Antibody Information
            hide Other Information
            hide Discoverer
            hide Etymology
            hide Identification
            hide Position Effect Variegation Data