Status
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Gene information
General information
TC015079 Gene

The sequence from the iB fragment is matched against the genes from the official gene set. The matche(s) is/are visualizied in a genome browser.

NC_007421.3: 3661123..3669484
Sequence information
Transcripts / Proteins (1) Get mRNA sequence
Get CDS sequence
Get protein sequence
Ortholog information (from OrthoDB)

The information about the homolog genes in Drosophila is provided by OrthoDB http://www.orthodb.org/. The homologs are sorted according to their similarity score. For an orthology statement additional analysis are required.
The data basis for the orthologs is OrthoDB v9 containing OGS3 for Tribolium castaneum and 2015_04 (r6.07) for Drosophila melanogaster.

Closest fly homologs
    TC015079
    Gene ontology

    GO terms for Tribolium

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    There are no GO terms for Tribolium at the moment. You can help the community by providing some GO terms for this gene.


    GO terms for the homologous Drosophila genes


    Assign a GO term to this Tribolium gene by filling in the fields. Repeat to add several GO terms. Search AmiGO for the correct GO ID. Use only the most specific term - use "graph views" to browse related terms ("child terms" are more specific; the more general "parent" terms will be automatically linked). Only information based on Tribolium data should be entered - do not define terms just based on Drosophila knowledge. We will review this information and submit the annotation to the Gene Ontology consortium.


    Gene
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    The Tribolium gene the GO term is assigned to.
    GO ID *
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    The ID of the GO term you assign to the gene. Please enter only the ID of the GO term with proceeding 'GO:'. This information is mandatory.
    Evidence
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    The evidence code describes with which method the function or location, expressed by the GO term, was show for this gene. Please refer to this page for a definition of the evidence code and a decision tree.
    Reference *
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    The reference where the function or location is described for the gene. Please enter a PubMed ID. This information is mandatory.
    Quotation
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    Name
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    Email
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_02395

    Attention! iBeetle is a first pass screen. Hence, the documented phenotypes need to be confirmed by independent experiments using non-overlapping dsRNA fragments! Phenotypes with a penetrance > 50% are frequently reproduced. See Schmitt-Engel et al. 2015 for details on reproducibility.

    iB sequence
    Phenotype after pupal injection
    Usually 10 injected animals

    Pupal injection procedure

    Day 0: 10 female pupae of the pBA19 strain (muscle enhancer trap line) were injected with dsRNA.

    3 days post injection (dpi): Hatch control: Pupal and adult lethality as well as metamorphosis defects (molting, eclosion) were documented. For mating, 4 males of the black strain were added.

    9 dpi: First egg-lay was collected and incubated for cuticle analysis. Adult lethality and egg production (reduced/ no egg-lay) was documented.

    11 dpi: Second egg-lay was collected and incubated for embryonic muscle analysis. Adult lethality and egg production (reduced/ no egg-lay) were documented.

    Note: The adult morphology was not analyzed systematically at 3/9/11 dpi. Only obvious phenotypes, visible without magnification, have been annotated.

    13 dpi: Egg productivity and Ovary analysis
    The percentage of hatched larvae was documented and not hatched larvae/ eggs were embedded for cuticle analysis (15 dpi). In case of a reduction of egg production, 4 injected females were dissected to analyze the gross morphology of the ovaries.

    14 dpi: Analysis of embryonic musculature and early embryonic development
    Offspring of the injected females (hatched and not hatched larvae/ eggs) were analysed for embryonic lethality and muscle defects.

    15 dpi: Analysis of larval instar 1 cuticle
    Offspring of injected females were analysed and cuticle phenotypes were annotated.

    22 dpi: Stink gland analysis
    Documentation of defects in abdominal and thoracic stink glands (colour, size, content) of the injected femals.

    Terms used in the pupal injection procedure

    larval pantagmatic defects
    At least two tagmata (head, thorax, abdomen or terminus) show similar/ comparable defects.
    empty eggs
    Just empty shells are visible, no cuticle has been developed.
    strong defects
    L1 cuticle larvae which show severe defects. These strong defects are subdivided into three categories
    strongly fragmented (cuticle crumbs)
    No segments or appendages are identifiable, only residues of cuticle and bristles can be identified.
    cuticle remnants (with unidentifiable segments)
    Segments or parts of appendages are recognizable, but identity is not clear.
    cuticle remnants (with some identifiable segments)
    At least one segment or appendage is clearly regonizable.
    number of eggs on slide
    affected embryos usually (not always) do not hatch. Only the not hatched were used for cuticle analysis.
    For the embryonic muscle analysis the hatched as well as the not hatched were analysed.
    total number of affected eggs/embryos/larvae
    Summary of all different phenotypes/ phenotypic series which were annotated.
    inside-out
    The L1 larva shows a partial or complete inversion., e.g. bristles, appendages or parts of the abdominal segments are inverted into the interior of the cuticle.
    starved
    Dissected females show a strong resorption of fatbody predominately in the abdomen and the oogenesis is blocked. These are considered as eventually lethal phenotypes and the blocked oogenesis probably a secondary defect due to starvation.
    eclosion not fulfilled
    The emergence of the adult from the pupa stage is interrupted. This phenotype shows pupal as well as adult features.
    Please see the help page for more information
    Metamorphosis and survival

    Lethality 11 days after pupal injection: 20.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized -
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    Phenotype after larval injection
    Usually 10 injected animals

    Larval injection procedure

    Day 0: 10 female L5-6 larvae of the D17Xhom strain (females express RFP in the eyes and in the CNS; pupae express GFP in the thorax) were injected with dsRNA.

    11 days post injection (dpi): Pupal morphology Documentation of larval/ pupal death and defects of metamorphosis (eclosion, delayed development). Screening for alterations of pupal head and appendages, pupal thorax, pupal thoracic musculature, pupal legs, pupal wings, pupal abdomen and pupal genital lobes.

    16 dpi: Adult morphology Documentation of larval/ pupal and adult death and defects of metamorphosis (eclosion, delayed development). Screening for alterations of adult head and appendages, adult thorax, adult elytra and hindwings, adult legs and cuticle properties. For mating 4 males of the black strain were added.

    19 dpi: Sieving and egg-lay Documentation of adult lethality and enduring metamorphosis defects.

    22 dpi: Ovary analysis (Fertility) In case of a reduction of egg production 4 females were dissected and the gross morphology of the ovaries were analysed.

    41 dpi: Fertility and stink gland analysis Documentation of defects in abdominal and thoracic stink glands development (colour, size, content) of the injected females. Check for fertility of injected larvae (no or decreased offspring).

    Terms used in the larval injection procedure

    pupal/ adult pantagmatic defects
    At least two tagmata (head, thorax, abdomen or terminus) show similar/ comparable defects.
    pupal molt not fulfilled
    The hatching from the larva to the pupa is interrupted. Either it dies as prepupa or the phenotype shows larval as well as pupal features.
    eclosion not fulfilled
    The emergence of the adult from the pupa stage is interrupted. This phenotype shows pupal as well as adult features.
    starved
    Dissected females show a strong resorption of fatbody predominately in the abdomen and the oogenesis is blocked. These are considered as eventually lethal phenotypes and the blocked oogenesis probably a secondary defect due to starvation.
    Metamorphosis and survival

    Lethalities 11 days after larval injection: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    Fertility
    fertility after larval injection decreased (no living offspring) -
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC015079 RA
      MMKQLFFAV MGLVALTSA QHNHEHHRV NVAVYYEAL 
      CPDSIKFFT QQLYPSLQG NLSQFVNLT LLPYGKSKT 
      TEQIPGQYE FNCHHGPAE CQGNRLQVC ALRTIGEGH 
      NSEGLGYNK VATAFINCL MDKVKPNGN QTQFPTQEC 
      ATINHVPNY VNIENCANH VEGSQYLAE IGKQTDALK 
      PPLTSVPTV VFNNQYKQD DNEMAKTNF VKALCQYIH 
      GEKPAECTK NSAIVAKMS YALFVFASV WLYVI
    CDS sequence
    • >TC015079 RA
      atgatgaaa caattgttc tttgccgtg atgggtctg 
      gtggccctt acgagtgcc caacacaac catgaacac 
      catagggtg aacgtggca gtctactac gaggctttg 
      tgtccggat tcgatcaag tttttcaca cagcaactg 
      tatccgtcg ctgcagggg aatctctcg cagtttgtc 
      aatttgacg cttttgccc tacggcaag tcgaagaca 
      accgagcaa attcccggc caatatgag ttcaactgt 
      caccatgga ccggccgaa tgtcaggga aaccgcctc 
      caagtctgc gcccttcgc actattggc gagggtcac 
      aactctgaa ggtttgggg tacaacaaa gtcgccaca 
      gctttcatc aactgtttg atggacaaa gtcaagccc 
      aacggcaac caaacgcaa ttccctaca caagagtgt 
      gccacaatc aaccacgtg cccaactac gtcaatata 
      gaaaattgc gccaatcac gttgaagga tcccaatat 
      ttggccgaa attggtaaa caaaccgat gctttgaaa 
      ccaccactg acctcagtc cccactgtg gtctttaac 
      aatcagtac aaacaggat gataatgaa atggcaaaa 
      accaatttc gtcaaagct ttatgtcag tacattcac 
      ggggaaaaa ccagctgaa tgtacgaaa aattccgca 
      attgttgct aaaatgagt tacgcactt ttcgtgttt 
      gcgagtgtt tggctttat gtaatttag
    mRNA sequence
    • >TC015079 RA
      gttgaaaaa agaacaaca ttcttgcaa acttctata 
      aacaataaa tgagtcacc acttaatca tctttattg 
      caagaaacc agctcggct cgcttgaat taaaaatca 
      aaccgtcat tgcagtctc ataaataaa acatatcga 
      ttgtcgaaa gagaaatct agtaggttc gccactacc 
      catcggcca aaatggcgc agatgtctc tcccatcgc 
      ctcacctct aaatattcg ataatgctg acgtaacag 
      cagcaattc aaattcgta tcccgccaa caatgtaac 
      aaattcatc gtcgtcacg gtcgaatcg cctcaagac 
      actcccacc aatgagggg tcagagccg tgagcctct 
      gttcacttg tttcatccg cagagccgt agccaacct 
      ggattgacc gaagcgacg cgctcacca cacctcgtc 
      gacaatgat gaaacaatt gttctttgc cgtgatggg 
      tctggtggc ccttacgag tgcccaaca caaccatga 
      acaccatag ggtgaacgt ggcagtcta ctacgaggc 
      tttgtgtcc ggattcgat caagttttt cacacagca 
      actgtatcc gtcgctgca ggggaatct ctcgcagtt 
      tgtcaattt gacgctttt gccctacgg caagtcgaa 
      gacaaccga gcaaattcc cggccaata tgagttcaa 
      ctgtcacca tggaccggc cgaatgtca gggaaaccg 
      cctccaagt ctgcgccct tcgcactat tggcgaggg 
      tcacaactc tgaaggttt ggggtacaa caaagtcgc 
      cacagcttt catcaactg tttgatgga caaagtcaa 
      gcccaacgg caaccaaac gcaattccc tacacaaga 
      gtgtgccac aatcaacca cgtgcccaa ctacgtcaa 
      tatagaaaa ttgcgccaa tcacgttga aggatccca 
      atatttggc cgaaattgg taaacaaac cgatgcttt 
      gaaaccacc actgacctc agtccccac tgtggtctt 
      taacaatca gtacaaaca ggatgataa tgaaatggc 
      aaaaaccaa tttcgtcaa agctttatg tcagtacat 
      tcacgggga aaaaccagc tgaatgtac gaaaaattc 
      cgcaattgt tgctaaaat gagttacgc acttttcgt 
      gtttgcgag tgtttggct ttatgtaat ttaggtaaa 
      tcgaccaat ttttccatt tgtaccttt caaaagatt 
      gtactttaa atattcgag gttaggtta tagaattgt 
      ggcccttac aaaacaagc agagctact tatacatac 
      tttatatga ctaggatgt atttttttt aagaataaa 
      taaatcctc caata
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY