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Gene information
General information
TC002112 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_007418.3: 20402377..20406697
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
    TC002112
    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_07073

    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: 10.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 1 (11 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 - 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
    • >TC002112 RA
      MKTSSFCAF FLSAFFTTA TQGRIQINS CRSSRGGTC 
      IDVWKCPYY VNLLNSKPR PPTLIPKMK QNLCGFVNR 
      ETPKVCCRQ LDRGVVSGG DFITSHENF HLLPVDSCG 
      PISHSTRIT EGGRTSPRE FPWMALIAY KTGDSAEDG 
      DFKCGGSLI NERYVLTAA HCLDETSVL GIRLGEYDI 
      QTEKDCDPR GQNCEPPVQ DILIDKIII HNGYNPSTY 
      SHDIGLIRL ATPANLNLD NVKPICLPY GTLLNVNLV 
      GKFLTVTGW GVTETGHKS MVLNKASIP IVPLKECKK 
      LYGKFKPIS KGQICAGGY KGRDSCSGD SGGPLQYIT 
      SVGNTQRYV QDGIVSYGP SQCGIDGRP AIYTDIKEY 
      MSWILDNIE P
    CDS sequence
    • >TC002112 RA
      atgaaaact tccagtttt tgtgcgttt tttctgagt 
      gcttttttt acaactgcg acacaaggt cgaattcag 
      attaattct tgtcgcagt tcccgaggt ggcacttgc 
      atagacgtt tggaaatgt ccatattac gtaaatttg 
      ctaaattca aagccacgt cctccgact ctcattcca 
      aaaatgaaa caaaatctt tgcggcttc gtgaatcgt 
      gagaccccg aaagtttgt tgtagacag ttagaccgt 
      ggtgtggtt tctggtgga gattttata actagtcat 
      gaaaatttc catttgctg cctgttgat agttgtgga 
      cccatttcc catagcacg cgaataact gaaggagga 
      cggacaagt ccacgagag tttccctgg atggcgtta 
      attgcgtac aaaacagga gattccgct gaagatggg 
      gattttaag tgtggtggc agtttaatt aacgagaga 
      tatgtcctg actgctgca cactgcctg gatgaaact 
      tctgtattg ggaattcga ttgggcgaa tacgacatt 
      cagacagaa aaggattgt gaccccagg ggccaaaat 
      tgtgaacct cctgtacaa gatatccta atcgacaaa 
      ataataata cacaatggg tataatccc tcaacttat 
      tcgcacgat atagggttg attagactc gcaactcct 
      gctaatctc aacttagac aatgtaaag ccaatttgc 
      ttgccctac ggaactctc ctaaacgtc aatcttgta 
      ggaaaattt ttaaccgtg accggttgg ggagttaca 
      gaaacaggt cataaaagt atggtccta aacaaggct 
      tcaattccc atcgtgcct ttgaaagag tgtaagaaa 
      ctctatggt aaatttaag ccaatttca aaaggacaa 
      atttgtgcc gggggttac aaaggacga gattcctgt 
      tccggtgat agtggaggt cctttacag tatatcact 
      tctgtggga aacacccaa cgctatgtt caggatggt 
      atagtgtcc tatggacca tcgcaatgt gggattgat 
      ggtcggcca gcgatttac accgacata aaagaatat 
      atgtcatgg attttggac aatattgag ccatag
    mRNA sequence
    • >TC002112 RA
      actcatagt tgctggtaa ttctgaaga cggaatttc 
      caaatcaac cctaaactt ttggtagtg gtgggacaa 
      ataggcttt aaatgacta atattttta ttttctatt 
      ttacgttaa caacaccac cgctaacat tttttaatt 
      catactttg aattttgct atttttact aaaattttt 
      aaaacaaac cgagataaa aacggaata ctagtattg 
      tgcctccag gtagtctcc atatcttga gtcactacc 
      caaaaagct ttattccac tgtagacgt gatccgatc 
      agtatgaaa acttccagt ttttgtgcg ttttttctg 
      agtgctttt tttacaact gcgacacaa ggtcgaatt 
      cagattaat tcttgtcgc agttcccga ggtggcact 
      tgcatagac gtttggaaa tgtccatat tacgtaaat 
      ttgctaaat tcaaagcca cgtcctccg actctcatt 
      ccaaaaatg aaacaaaat ctttgcggc ttcgtgaat 
      cgtgagacc ccgaaagtt tgttgtaga cagttagac 
      cgtggtgtg gtttctggt ggagatttt ataactagt 
      catgaaaat ttccatttg ctgcctgtt gatagttgt 
      ggacccatt tcccatagc acgcgaata actgaagga 
      ggacggaca agtccacga gagtttccc tggatggcg 
      ttaattgcg tacaaaaca ggagattcc gctgaagat 
      ggggatttt aagtgtggt ggcagttta attaacgag 
      agatatgtc ctgactgct gcacactgc ctggatgaa 
      acttctgta ttgggaatt cgattgggc gaatacgac 
      attcagaca gaaaaggat tgtgacccc aggggccaa 
      aattgtgaa cctcctgta caagatatc ctaatcgac 
      aaaataata atacacaat gggtataat ccctcaact 
      tattcgcac gatataggg ttgattaga ctcgcaact 
      cctgctaat ctcaactta gacaatgta aagccaatt 
      tgcttgccc tacggaact ctcctaaac gtcaatctt 
      gtaggaaaa tttttaacc gtgaccggt tggggagtt 
      acagaaaca ggtcataaa agtatggtc ctaaacaag 
      gcttcaatt cccatcgtg cctttgaaa gagtgtaag 
      aaactctat ggtaaattt aagccaatt tcaaaagga 
      caaatttgt gccgggggt tacaaagga cgagattcc 
      tgttccggt gatagtgga ggtccttta cagtatatc 
      acttctgtg ggaaacacc caacgctat gttcaggat 
      ggtatagtg tcctatgga ccatcgcaa tgtgggatt 
      gatggtcgg ccagcgatt tacaccgac ataaaagaa 
      tatatgtca tggattttg gacaatatt gagccatag 
      tgtaaatat atacgtatt tatttatca aaaactgtc 
      ttaaaaatg tgatattgt actgtgttt ccttatatt 
      cagagtaga ctagttccc gtatgaaaa acattaacg 
      attatttgt tattaataa agtacagca ccaaatgta 
      aaaatttgc tgttttagt tcaaatcca attgtacct 
      gagcaaata tagctatta aattttc
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY