Status
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Gene information
General information
TC009874 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: 12818361..12819955
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
    TC009874
    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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    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01622

    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: 0.0% (includes death as pupa, adult)

    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%

    embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): less than 30%

    larval musculature irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larval musculature fluorescence decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    Comment: Fluorescence strongly decreased, but larvae were still alive
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    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%

    head not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - 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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009874 RA
      MKCHYEILN VPRDAELPE IKTAYRKAA LKWHPDKNL 
      NDTEFAKEQ FQMVQQAYD VLSDPQERA WYDKHREQI 
      LRGSNSEFQ DNCLDLFQY FTTTCFRGY GDDEKGFYT 
      VYRNVFDQI IKEDLEFID DKEEFCDIP RFGDSKSDY 
      DEVVGPFYS YWSSYCTKK SYVWLDPYN INETRDRRV 
      LKVIEKENK KVRQKAKKE RNDEIRNLV AFVRKRDKR 
      VQEHTKLLE AKILENRQK QEELSKQKR LERKKQLNE 
      STQAEWSKF DNVKSELEE IEKNLAEQF GEEFSNSED 
      EEDEEVNDL YCVACNKVF KTPKALENH ESSKKHREN 
      VELLKEIML EEEDGECLD EELDNSQIE DLTENEDSE 
      DSAEREKKA KKKNKKAKN ILTVNNDEE VDVTKIEES 
      DDNFDFDST KKQKKKKKQ NKRANEPKN EENQNTEPI 
      TKSIKKKQS KKEKQACSI EEIDTNHCC VSCKSAFPS 
      KNKLFEHLK STGHGVFLP KNVKKKKNA RED
    CDS sequence
    • >TC009874 RA
      atgaagtgt cattacgaa attctcaat gttcctcga 
      gacgccgag ctgccagaa attaaaact gcgtacaga 
      aaggccgct ctgaagtgg caccccgac aaaaacctc 
      aacgacact gagtttgct aaagagcag ttccagatg 
      gtacagcag gcttacgac gtgctcagc gatccccaa 
      gagcgggct tggtacgac aagcaccgc gagcaaatt 
      ttgcgcggc tccaattcc gagtttcaa gacaactgt 
      cttgacctg ttccagtat ttcaccact acgtgtttc 
      agagggtat ggggatgat gaaaaaggc ttttacacg 
      gtttatcgc aatgtgttt gaccaaatc atcaaggag 
      gatcttgag tttattgac gacaaggaa gagttctgt 
      gacatacca aggtttggt gattcaaag agtgactac 
      gatgaagtt gtcggtccg ttttactcc tactggtcg 
      agttattgc actaagaaa agctacgtt tggctggat 
      ccgtacaat attaacgaa acgcgtgat agaagggta 
      ttgaaagta atagagaaa gaaaataaa aaagttaga 
      cagaaagcc aagaaagaa aggaatgat gaaatcaga 
      aatcttgtt gcttttgtg aggaaaagg gacaaacgg 
      gttcaagaa cacactaag cttttggag gccaaaata 
      ttggagaat cgtcagaaa caggaagag ttgagtaag 
      caaaaaaga cttgagagg aaaaaacag ttgaatgaa 
      tcgactcaa gccgaatgg tccaaattt gataacgta 
      aaatctgag ttggaagaa atcgagaag aatctagct 
      gaacagttc ggtgaagaa ttttcaaat tctgaagac 
      gaggaagat gaagaagtt aatgatctc tattgtgta 
      gcgtgcaat aaggtgttc aaaacccct aaagcttta 
      gaaaatcac gaatcaagc aaaaagcac cgagaaaac 
      gtagaatta cttaaagaa attatgtta gaagaagag 
      gatggagag tgtctagat gaagaatta gataattca 
      caaattgaa gatctcact gaaaatgag gactcggaa 
      gattccgca gaaagagag aagaaagca aaaaagaaa 
      aacaaaaag gctaagaac attctcact gttaataat 
      gacgaagaa gttgacgta acgaaaatt gaggaatca 
      gacgataat ttcgacttt gactctact aaaaaacag 
      aagaagaaa aagaagcaa aataagcgt gcgaatgaa 
      ccgaaaaat gaagaaaat caaaacaca gaacctatt 
      actaagagc atcaaaaag aagcaaagt aagaaggaa 
      aaacaagct tgcagtatt gaagaaata gacaccaac 
      cactgttgt gtcagctgt aaatccgcc ttcccatca 
      aaaaataaa ttatttgaa catctaaaa agcaccgga 
      catggagtt tttctgccc aaaaacgta aagaaaaag 
      aaaaacgcg cgagaagat tag
    mRNA sequence
    • >TC009874 RA
      gttaggtta cggcgacca cattttttg cgaaaataa 
      aaaacttca attaaaaat gaagtgtca ttacgaaat 
      tctcaatgt tcctcgaga cgccgagct gccagaaat 
      taaaactgc gtacagaaa ggccgctct gaagtggca 
      ccccgacaa aaacctcaa cgacactga gtttgctaa 
      agagcagtt ccagatggt acagcaggc ttacgacgt 
      gctcagcga tccccaaga gcgggcttg gtacgacaa 
      gcaccgcga gcaaatttt gcgcggctc caattccga 
      gtttcaaga caactgtct tgacctgtt ccagtattt 
      caccactac gtgtttcag agggtatgg ggatgatga 
      aaaaggctt ttacacggt ttatcgcaa tgtgtttga 
      ccaaatcat caaggagga tcttgagtt tattgacga 
      caaggaaga gttctgtga cataccaag gtttggtga 
      ttcaaagag tgactacga tgaagttgt cggtccgtt 
      ttactccta ctggtcgag ttattgcac taagaaaag 
      ctacgtttg gctggatcc gtacaatat taacgaaac 
      gcgtgatag aagggtatt gaaagtaat agagaaaga 
      aaataaaaa agttagaca gaaagccaa gaaagaaag 
      gaatgatga aatcagaaa tcttgttgc ttttgtgag 
      gaaaaggga caaacgggt tcaagaaca cactaagct 
      tttggaggc caaaatatt ggagaatcg tcagaaaca 
      ggaagagtt gagtaagca aaaaagact tgagaggaa 
      aaaacagtt gaatgaatc gactcaagc cgaatggtc 
      caaatttga taacgtaaa atctgagtt ggaagaaat 
      cgagaagaa tctagctga acagttcgg tgaagaatt 
      ttcaaattc tgaagacga ggaagatga agaagttaa 
      tgatctcta ttgtgtagc gtgcaataa ggtgttcaa 
      aacccctaa agctttaga aaatcacga atcaagcaa 
      aaagcaccg agaaaacgt agaattact taaagaaat 
      tatgttaga agaagagga tggagagtg tctagatga 
      agaattaga taattcaca aattgaaga tctcactga 
      aaatgagga ctcggaaga ttccgcaga aagagagaa 
      gaaagcaaa aaagaaaaa caaaaaggc taagaacat 
      tctcactgt taataatga cgaagaagt tgacgtaac 
      gaaaattga ggaatcaga cgataattt cgactttga 
      ctctactaa aaaacagaa gaagaaaaa gaagcaaaa 
      taagcgtgc gaatgaacc gaaaaatga agaaaatca 
      aaacacaga acctattac taagagcat caaaaagaa 
      gcaaagtaa gaaggaaaa acaagcttg cagtattga 
      agaaataga caccaacca ctgttgtgt cagctgtaa 
      atccgcctt cccatcaaa aaataaatt atttgaaca 
      tctaaaaag caccggaca tggagtttt tctgcccaa 
      aaacgtaaa gaaaaagaa aaacgcgcg agaagatta 
      gtctaattt aaattattg ttctatagt attaaactg 
      tgaaataaa ac
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY