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Gene information
General information
TC001958 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.

scaffold_seqid21: 2941320..2964022
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
    TC001958
    iBeetle screen iB_03277
    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: 30.0% (includes death as pupa, adult)

    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): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): less than 30%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    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
    • >TC001958 RA
      MLQSGRFLL WVLVVNLPR AILCLKDVV LEIEPEIVH 
      LGEDSTLRC SYDLEDAPL YCVKWYRGR HEFYRYTPK 
      EHPSTKIFP FTGIHVDLK QSDEKQVVL REVGFSLSG 
      KFTCEVTTD APLFSTAAV SKDMLVVVL PNQEPTLVT 
      EKTSYDNGD VLRANCTSP PSRPAATLT FMLNNKVVC 
      EKCATRKHA TQELWWSEL SLELPLFPS HFNSDRITL 
      KCIARIGKI YERDVQVTM PNTSMKDPI PARVTQSSA 
      GSHYIKTFN VINILYLLL FISVS
    CDS sequence
    • >TC001958 RA
      atgctgcaa agtgggcgt tttttgctg tgggtgctg 
      gtggtgaac ttgccaaga gcgattctg tgcttgaaa 
      gatgtggtt ctggaaata gagccagag atcgtccat 
      ttgggcgag gactcgacg ttgagatgc agctacgac 
      ctggaagat gcaccactt tactgcgtc aagtggtac 
      agaggccgg cacgagttc tacagatac acacccaaa 
      gagcacccc agcacgaaa atattccct tttacgggg 
      atacacgtc gacctaaag caatcggat gagaagcag 
      gtggtcctg agggaggtg gggttcagc ctctctgga 
      aagtttaca tgcgaagtg accacagat gcgcccctc 
      ttctccaca gcggctgtc tccaaagac atgctagtt 
      gttgtttta cccaatcaa gagcctacg cttgtcacc 
      gaaaaaaca tcctatgat aacggggat gtgttgcga 
      gctaattgc acatcgcca ccctcgcga cctgcagcc 
      acactcact ttcatgctc aacaataaa gtggtgtgc 
      gaaaagtgt gcaactcgc aaacatgcc acgcaagag 
      ttgtggtgg agcgaactg tcgctcgaa cttcctctt 
      tttccgtct catttcaac agcgatagg attacgctc 
      aagtgcatc gcaagaatc gggaagatt tacgaaagg 
      gacgtccag gtcacaatg cccaacacg agcatgaaa 
      gacccgata ccagcacga gtcacacag agttcagct 
      gggagccac tacatcaaa accttcaac gtaataaat 
      atcttatac ctattattg tttatttcc gtgtcttaa
    mRNA sequence
    • >TC001958 RA
      cgctagtat ttaccacca cgtactttt aaagtaatc 
      tttctattc gggggtgca cgcttgcgc accctccgc 
      ggccggaga tttgctaca tccacttct cactcggtc 
      cagcgcgtc gaaacttcg cggaagaag tgtcttgtg 
      ggacttcga aacggcccg aacaagaaa acgataaag 
      ttatgttgc gattttggc agtgcttgc aaaagtttg 
      atatggagt gcatgtggc cgtagagga ccatgctgc 
      aaagtgggc gttttttgc tgtgggtgc tggtggtga 
      acttgccaa gagcgattc tgtgcttga aagatgtgg 
      ttctggaaa tagagccag agatcgtcc atttgggcg 
      aggactcga cgttgagat gcagctacg acctggaag 
      atgcaccac tttactgcg tcaagtggt acagaggcc 
      ggcacgagt tctacagat acacaccca aagagcacc 
      ccagcacga aaatattcc cttttacgg ggatacacg 
      tcgacctaa agcaatcgg atgagaagc aggtggtcc 
      tgagggagg tggggttca gcctctctg gaaagttta 
      catgcgaag tgaccacag atgcgcccc tcttctcca 
      cagcggctg tctccaaag acatgctag ttgttgttt 
      tacccaatc aagagccta cgcttgtca ccgaaaaaa 
      catcctatg ataacgggg atgtgttgc gagctaatt 
      gcacatcgc caccctcgc gacctgcag ccacactca 
      ctttcatgc tcaacaata aagtggtgt gcgaaaagt 
      gtgcaactc gcaaacatg ccacgcaag agttgtggt 
      ggagcgaac tgtcgctcg aacttcctc tttttccgt 
      ctcatttca acagcgata ggattacgc tcaagtgca 
      tcgcaagaa tcgggaaga tttacgaaa gggacgtcc 
      aggtcacaa tgcccaaca cgagcatga aagacccga 
      taccagcac gagtcacac agagttcag ctgggagcc 
      actacatca aaaccttca acgtaataa atatcttat 
      acctattat tgtttattt ccgtgtctt aagactgtt 
      ctgttgagg tgtctttag ttgtaataa ctgtaagga 
      atttactat aattgtgat gaaatttgc tgcaactag 
      tcgtttaga gggtcgtat ctaaatttt gtatgattt 
      cgacgagga tataccatt gtaagcgac gtttttgaa 
      atggatgga tgttgaaaa gtaaataaa tatattatc 
      tattt