FB2020_01, released Feb 12, 2020

Gene: Dmel\l(2)41Ab

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General Information
Symbol
Dmel\l(2)41Ab
Species
D. melanogaster
Name
lethal (2) 41Ab
Annotation Symbol
CG41265
Feature Type
protein_coding_gene
FlyBase ID
FBgn0262123
Gene Model Status
Current
Stock Availability
3 publicly available
Gene Snapshot
In progress.Contributions welcome.
Other Summaries
Also Known As

41Ab, GroupI

Key Links
Genomic Location
Cytogenetic map
h41-h41
Sequence location
2R:1,349,392..1,443,935 [+]
Recombination map

2-55

RefSeq locus
NT_033778 REGION:1349392..1443935
Sequence
Get Decorated FASTA
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
NCBI
UCSC
Ensembl
Function
GO Summary Ribbons
Protein Family (UniProt)
-
Protein Signatures (InterPro)
Molecular Function (GO)
[Detailed GO annotations]
Experimental Evidence
-
Predictions / Assertions
-
Summaries
Phenotypic Description (Red Book; Lindsley and Zimm 1992)
l(2)41Ab
Late larval lethal, but without melanotic masses. Alleles apparently form a circular complementation map.
Gene Model and Products
Number of Transcripts
2
Number of Unique Polypeptides
2

Please see the GBrowse view of Dmel\l(2)41Ab or the JBrowse view of Dmel\l(2)41Ab for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)
Isoform displayed:
Pfam protein domains
InterPro name
classification
start
end
Protein Domains (via SMART)
Isoform displayed:
SMART protein domains
InterPro name
classification
start
end
Comments on Gene Model

Gene model reviewed during 5.47

Low-frequency RNA-Seq exon junction(s) not annotated.

Gene model reviewed during 5.52

Gene model reviewed during 6.01

Sequence Ontology: Class of Gene
gene
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
l(2)41Ab-RA
FBtr0114030
NM_001110887
2971
890
l(2)41Ab-RB
FBtr0114029
NM_001110886
2794
807
Additional Transcript Data and Comments
Reported size (kB)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
RefSeq ID
GenBank
l(2)41Ab-PA
FBpp0112753
104.9
890
8.22
NP_001104357
EDP28115
l(2)41Ab-PB
FBpp0112752
95.3
807
9.30
NP_001104356
EDP28114
Polypeptides with Identical Sequences

None of the polypeptides share 100% sequence identity.

Additional Polypeptide Data and Comments
Reported size (kDa)
Comments
External Data
Crossreferences
InterPro - A database of protein families, domains and functional sites
Linkouts
Sequences Consistent with the Gene Model
Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\l(2)41Ab using the Feature Mapper tool.

External Data
Crossreferences
Linkouts
Gene Ontology (6 terms)
Molecular Function (0 terms)
There is no information supporting a Molecular Function term for this gene. (Based on a review of available data on: 2012-06-07 )
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (0 terms)
Biological Process (4 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (4 terms)
CV Term
Evidence
References
axonemal dynein complex assembly
inferred from sequence or structural similarity with HGNC:26090
(FlyBase Curators, 2008--)
cilium assembly
inferred from biological aspect of ancestor with PANTHER:PTN002313893
(assigned by GO_Central )
(Gaudet et al., 2011)
cilium movement
inferred from sequence or structural similarity with HGNC:26090,MGI:MGI:244389
(FlyBase Curators, 2008--)
epithelial cilium movement involved in determination of left/right asymmetry
inferred from biological aspect of ancestor with PANTHER:PTN002313893
(assigned by GO_Central )
(Gaudet et al., 2011)
Cellular Component (2 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
axoneme
inferred from biological aspect of ancestor with PANTHER:PTN002313893
(assigned by GO_Central )
(Gaudet et al., 2011)
cytoplasm
inferred from sequence or structural similarity with MGI:MGI:2443893
(FlyBase Curators, 2008--)
Expression Data
Expression Summary Ribbons
Colored tiles in ribbon indicate that expression data has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.
For complete stage-specific expression data, view the modENCODE Development RNA-Seq section under High-Throughput Expression below.
Transcript Expression
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\l(2)41Ab in GBrowse 2
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
Bulk Downloads
RNA-Seq RPKM values for all genes
Reference
See Gelbart and Emmert, 2013 for analysis details and data files for all genes.
Developmental Proteome: Life Cycle
Developmental Proteome: Embryogenesis
External Data and Images
Alleles, Insertions, and Transgenic Constructs
Classical and Insertion Alleles ( 7 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 0 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of l(2)41Ab
Transgenic constructs containing regulatory region of l(2)41Ab
Deletions and Duplications ( 32 )
Phenotypes
For more details about a specific phenotype click on the relevant allele symbol.
Lethality
Allele
lethal
Phenotype manifest in
Allele
Orthologs
Downloads
Download All DIOPT Orthologs
Download All OrthoDB Orthologs
Human Orthologs (via DIOPT v7.1)
Homo sapiens (Human) (1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Hsap\CCDC40
13 of 15
Yes
Yes
 
Model Organism Orthologs (via DIOPT v7.1)
Mus musculus (laboratory mouse) (1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Mmus\Ccdc40
11 of 15
Yes
Yes
Rattus norvegicus (Norway rat) (1)
Rnor\Ccdc40
5 of 13
Yes
Yes
Xenopus tropicalis (Western clawed frog) (4)
Xtro\ccdc40
2 of 12
Yes
Yes
Xtro\ccdc40
1 of 12
No
Yes
Xtro\ccdc88a
1 of 12
No
No
Xtro\LOC101731483
1 of 12
No
Yes
Danio rerio (Zebrafish) (1)
Drer\ccdc40
13 of 15
Yes
Yes
Caenorhabditis elegans (Nematode, roundworm) (0)
No records found.
Arabidopsis thaliana (thale-cress) (0)
No records found.
Saccharomyces cerevisiae (Brewer's yeast) (0)
No records found.
Schizosaccharomyces pombe (Fission yeast) (0)
No records found.
Orthologs in Drosophila Species (via OrthoDB v9.1) ( EOG091902KS )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila melanogaster
fruit fly
Dmel\l(2)41Ab
Drosophila simulans
Dsim\GD27610
Drosophila simulans
Dsim\GD29221
Drosophila erecta
Dere\GG26686
Drosophila yakuba
Dyak\GE29129
Drosophila yakuba
Dyak\GE11326
Drosophila ananassae
Dana\GF26442
Drosophila pseudoobscura pseudoobscura
Dpse\GA33032
Drosophila willistoni
Dwil\GK27409
Drosophila virilis
Dvir\GJ21982
Drosophila mojavensis
Dmoj\GI18260
Drosophila grimshawi
Dgri\GH13353
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091502BH )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Mdoa\17019448
Glossina morsitans
Tsetse fly
Gmor\GMOY002732
Lucilia cuprina
Australian sheep blowfly
Lcup\FF38_10441
Aedes aegypti
Yellow fever mosquito
Aaeg\AAEL008498
Anopheles darlingi
American malaria mosquito
Adar\ADAC003202
Anopheles gambiae
Malaria mosquito
Agam\AGAP009129
Culex quinquefasciatus
Southern house mosquito
Cqui\CPIJ000758
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W01GV )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Bombyx mori
Silkmoth
Bmor\BGIBMGA005632
Danaus plexippus
Monarch butterfly
Dple\DPOGS200337-PA
Heliconius melpomene
Postman butterfly
Hmel\HMEL000055
Heliconius melpomene
Postman butterfly
Hmel\HMEL005794
Apis florea
Little honeybee
Aflo\2728459716
Apis mellifera
Western honey bee
Amel\GB45581
Bombus impatiens
Common eastern bumble bee
Bimp\BIMP15215
Bombus terrestris
Buff-tailed bumblebee
Bter\15208624
Linepithema humile
Argentine ant
Lhum\LH17995
Megachile rotundata
Alfalfa leafcutting bee
Mrot\MROTU:0018bf
Nasonia vitripennis
Parasitic wasp
Nvit\Nasvi2EG005198
Dendroctonus ponderosae
Mountain pine beetle
Dpod\YQE_04508
Tribolium castaneum
Red flour beetle
Tcas\TC034178
Pediculus humanus
Human body louse
Phum\PHUM208760
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI52138
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI53004
Zootermopsis nevadensis
Nevada dampwood termite
Znev\Znev_01656
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X01F0 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strigamia maritima
European centipede
Smar\SMAR010483
Stegodyphus mimosarum
African social velvet spider
Smim\KFM80534.1
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_95934
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G0271 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Ccdc40-2
Ciona intestinalis
Vase tunicate
Cint\ENSCING00000022116
Gallus gallus
Domestic chicken
Ggal\CCDC40
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v7.1)
Drosophila melanogaster (Fruit fly) (0)
No records found.
Human Disease Associations
FlyBase Human Disease Model Reports
    Disease Model Summary Ribbon
    Disease Ontology (DO) Annotations
    Models Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Evidence
    References
    Potential Models Based on Orthology ( 1 )
    Human Ortholog
    Disease
    Evidence
    References
    CCDC40; coiled-coil domain containing 40
    model of  primary ciliary dyskinesia 15
    IEA
    (FlyBase, 2019-)
    Modifiers Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Interaction
    References
    Disease Associations of Human Orthologs (via DIOPT v7.1 and OMIM)
    Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.
    Homo sapiens (Human)
    Gene name
    Score
    OMIM
    OMIM Phenotype
    DO term
    Complementation?
    Transgene?
    CCDC40; coiled-coil domain containing 40
    13 of 15
    613799
     
    Functional Complementation Data
    Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.
    Interactions
    Summary of Physical Interactions
    esyN Network Diagram
    Interactions Browser
    Summary of Genetic Interactions
    esyN Network Diagram
    Starting gene(s)
    Interaction type
    Interacting gene(s)
    Reference
    Starting gene(s)
    Interaction type
    Interacting gene(s)
    Reference
    External Data
    Linkouts
    DroID - A comprehensive database of gene and protein interactions.
    Pathways
    Signaling Pathways (FlyBase)
    Metabolic Pathways
    External Data
    Linkouts
    Genomic Location and Detailed Mapping Data
    Chromosome (arm)
    2R
    Recombination map

    2-55

    Cytogenetic map
    h41-h41
    Sequence location
    2R:1,349,392..1,443,935 [+]
    FlyBase Computed Cytological Location
    Cytogenetic map
    Evidence for location
    h41-h41
    Left limit from inclusion within Df(2R)rl-F (FBrf0028786) Right limit from complementation mapping against T(Y;2)B (FBrf0054171)
    Experimentally Determined Cytological Location
    Cytogenetic map
    Notes
    References
    Location with respect to l(2)41Aa is unknown.
    (Hilliker, 1976)
    Heterochromatic, cytological location not yet determined.
    (FlyBase Genome Annotators, 2002-2003)
    Experimentally Determined Recombination Data
    Location

    2-55

    (FlyBase, 2016)

    2-55.3

    (Comeron et al., 2012)

    2-55.1

    Left of (cM)
    Right of (cM)
    Notes
    Stocks and Reagents
    Stocks (3)
    Genomic Clones (42)
    cDNA Clones (19)
     

    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 sequences
    BDGP DGC clones
      Other clones
      Drosophila Genomics Resource Center cDNA clones

      For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

      cDNA Clones, End Sequenced (ESTs)
      BDGP DGC clones
      Other clones
      RNAi and Array Information
      Linkouts
      DRSC - Results frm RNAi screens
      GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
      Antibody Information
      Laboratory Generated Antibodies
       
      Commercially Available Antibodies
       
      Other Information
      Relationship to Other Genes
      Source for database identify of
      Source for database merge of

      Source for merge of: CG40214 CG40334

      (Drosophila Heterochromatin Genome Project, 2007)

      Source for merge of: l(2)41Ab CG41265

      (Coulthard et al., 2010)
      Additional comments

      Annotations CG40214 and CG40334 merged as CG41265 in release 5.2 of the genome annotation.

      (Drosophila Heterochromatin Genome Project, 2007)

      Alleles apparently form a circular complementation map.

      Other Comments

      Duplicate transcripts identified and eliminated during the migration of annotations from the release 5 genome assembly to the release 6 assembly.

      (FlyBase Genome Annotators, 2014)

      New annotation (CG40214) in release 3 of the genome annotation.

      (FlyBase Genome Annotators, 2002-2003)

      New annotation (CG40334) in release 3 of the genome annotation.

      (FlyBase Genome Annotators, 2002-2003)

      Late larval lethal, but without melanotic masses.

      Origin and Etymology
      Discoverer
      Etymology
      Identification
      External Crossreferences and Linkouts ( 22 )
      Sequence Crossreferences
      NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.
      GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.
      GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.
      RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.
      UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information
      Other crossreferences
      Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
      FlyMine - An integrated database for Drosophila genomics
      GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
      iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
      InterPro - A database of protein families, domains and functional sites
      KEGG Genes - Molecular building blocks of life in the genomic space.
      modMine - A data warehouse for the modENCODE project
      Linkouts
      DroID - A comprehensive database of gene and protein interactions.
      DRSC - Results frm RNAi screens
      Synonyms and Secondary IDs (10)
      Reported As
      Symbol Synonym
      1(2R)B
      41Ab
      (Dimitri et al., 2005, Cenci et al., 2003, Dimitri et al., 2003)
      CG40214
      CG40334
      CG41265
      (Caizzi et al., 2016, Ashwal-Fluss et al., 2014, Coulthard et al., 2010, Drosophila Heterochromatin Genome Project, 2007)
      GroupI
      (Ganetzky, 1977, Hilliker, 1976)
      l(2)41Ab
      (Branco et al., 2017, FlyBase Genome Annotators, 2014, Vujatovic et al., 2012, Friedman et al., 2011, Coulthard et al., 2010, Dimitri et al., 2003)
      l(2)EMS45-10
      (Eberl et al., 1993)
      l(2R)B
      (Hilliker and Holm, 1975)
      Name Synonyms
      CG40214
      CG40334
      lethal (2) 41Ab
      Secondary FlyBase IDs
      • FBgn0002064
      • FBan0041265
      • FBgn0085586
      • FBgn0058214
      • FBgn0058334
      Datasets (0)
      Study focus (0)
      Experimental Role
      Project
      Project Type
      Title
      References (30)