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Gene information
General information
TC009290 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_007422.5: 1857473..1858448
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
    TC009290
    iBeetle screen iB_08627

    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: 50.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 3 (9 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    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: % (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: % (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009290 RA
      MMKQRQKLK PDASYKKFG KHSDSDDET 
      ELFTVRKTS PKKEKATVE KTVEEGDTL 
      QSLAIRYCC TIEDLKRLN NIHKENEIF 
      AKRTIKVPQ YPIALALAG VHVSGRSSP 
      NDPSASGQV DTDQLTTSL KETEVNQII 
      FNSSLAQKS HDVTEESGD DEEVHLLPH 
      SPLEEPAVT KIDCSGVDG DISIKALVL 
      CIVIVIFAV PLIYVFYVA EHPKQHHHN 
      HVS
    CDS sequence
    • >TC009290 RA
      atgatgaaa caaaggcaa aagttgaag ccggacgcc 
      agttacaaa aagtttggc aagcacagc gatagcgat 
      gacgagact gaactgttt acagtacgg aaaacctcc 
      ccaaaaaag gaaaaagcg acggtggag aagaccgta 
      gaggagggc gacacgttg caatccctc gcaattcgt 
      tactgttgt acgattgaa gatctgaaa cgcttgaat 
      aacatccac aaagaaaat gagattttc gccaaaagg 
      acgatcaaa gtgccacag taccccatt gctctggct 
      ctggccggg gtgcacgtc agcgggcgc agctccccg 
      aatgaccct tcagccagt ggtcaagtg gacactgat 
      cagttgact actagtttg aaggaaacg gaagttaac 
      caaattatt tttaatagt agtttagcg caaaagagt 
      cacgacgtg actgaggag agtggggac gatgaagag 
      gtgcatttg ttgccgcac agcccgctt gaggagccg 
      gctgtgacc aagatcgac tgtagtggg gttgatggt 
      gatatttcg ataaaagcc ctcgttttg tgtatagtg 
      attgttatt tttgccgtg cctttgatt tacgtgttt 
      tacgtagca gagcacccc aagcaacac caccataac 
      cacgtgtca tga
    mRNA sequence
    • >TC009290 RA
      aacgtgaca ggtgtcagt gtcctaacc tcgtttccc 
      gatgtctta aaaatactc cgaaaatga tgaaacaaa 
      ggcaaaagt tgaagccgg acgccagtt acaaaaagt 
      ttggcaagc acagcgata gcgatgacg agactgaac 
      tgtttacag tacggaaaa cctccccaa aaaaggaaa 
      aagcgacgg tggagaaga ccgtagagg agggcgaca 
      cgttgcaat ccctcgcaa ttcgttact gttgtacga 
      ttgaagatc tgaaacgct tgaataaca tccacaaag 
      aaaatgaga ttttcgcca aaaggacga tcaaagtgc 
      cacagtacc ccattgctc tggctctgg ccggggtgc 
      acgtcagcg ggcgcagct ccccgaatg acccttcag 
      ccagtggtc aagtggaca ctgatcagt tgactacta 
      gtttgaagg aaacggaag ttaaccaaa ttattttta 
      atagtagtt tagcgcaaa agagtcacg acgtgactg 
      aggagagtg gggacgatg aagaggtgc atttgttgc 
      cgcacagcc cgcttgagg agccggctg tgaccaaga 
      tcgactgta gtggggttg atggtgata tttcgataa 
      aagccctcg ttttgtgta tagtgattg ttatttttg 
      ccgtgcctt tgatttacg tgttttacg tagcagagc 
      accccaagc aacaccacc ataaccacg tgtcatgat 
      gttttattt ttgtgaaag ttttatttt atcaatagt 
      tgtgatagc agctaatct cattaagta ttaactgta 
      catagcaca gtattgtag cgggtgcta acgttgttg 
      gattttatt gaacaaagt ttacacagc aatttgtaa 
      taaataata aaacggctt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY