Status
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Gene information
General information
TC009189 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: 3276620..3278984
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
    TC009189
    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
    If you paste here the relevant section of the reference it is for us a great help to review your annotation. The quotation may be also be displayed to the users of iBeetle-Base.
    Name
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    Email
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    Publish name
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_08662

    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: 4 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    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
    • >TC009189 RA
      MSRRSETTT KVFVGSLPN GVTTDDLRS LFAPYGAIA 
      ECDIANRCG FLHLEDHDL AMKAIAELN GTNFMGGRI 
      SVEKGRVKP RRGPGGGGP MRGGKDRGG PYARSDFRG 
      PPHRNGGFG GGRDYPPYG GGDRFGAYD RPPQRGGYD 
      GAYADRRPP YDDRRGAAF GAERRPFSS DFDRRPYAD 
      ARPGGFPEV PRVDYDDRR PPAAEFDDR RPLLADRRP 
      LLDQQGPPP PRGPAAFDR GAPVAELYS RRDQVPKPL 
      GGAGGFPDR VGYATASAN GYTAGYGSP AAPPTGGYG 
      TPAPPTAGY GTGAGTFGS PAPQGAYSD ARGYGTAAA 
      YGTPGGYGD TYGAGAGGR GSYDAAYPP LPQQRGGYF
    CDS sequence
    • >TC009189 RA
      atgagccgc cgctcagaa accacaacg aaagttttc 
      gtgggcagt ctgcccaac ggagtaacc acagacgac 
      ttgcgttcc cttttcgcc ccctatggg gctatcgcc 
      gaatgcgat atagctaac cggtgcggt ttcctccac 
      cttgaagac cacgacttg gccatgaaa gccattgcg 
      gaactcaac ggtaccaat ttcatgggt gggcgaatt 
      tccgtcgaa aaggggcgg gtgaaaccc agacggggg 
      cctgggggc ggcggcccg atgcgcggg ggcaaagac 
      cggggcggg ccttacgca cgaagcgac tttcgcggg 
      cctccacac cgaaacggg ggctttggt ggtgggcgt 
      gactacccg ccttatggg ggcggtgac aggtttggg 
      gcgtatgac aggccgccc caaaggggc ggctacgac 
      ggggcgtac gccgaccgg aggccgccg tacgatgac 
      cgtcggggg gctgcgttc ggcgccgag aggaggccc 
      ttcagtagc gattttgat cgacgtccg tatgctgac 
      gcccgtcct gggggcttc ccggaggtg ccacgagtc 
      gattacgac gatcggcga ccccctgct gcggaattc 
      gacgatcgg aggccgctt ttagccgac aggaggccc 
      cttttggac cagcagggg ccgccgccg ccgagggga 
      cccgccgcg tttgacagg ggggctccc gtggccgag 
      ctgtacagt cggagggac caagtgcct aagccattg 
      ggcggggct gggggtttt ccggatcgt gtcggttac 
      gcaacggcg tcagccaat ggttacaca gcggggtac 
      ggtagtcca gcggctccg ccaactggc ggttacgga 
      acgccggct cctccaacc gctgggtat ggcacaggg 
      gcggggact ttcggtagt cccgcccct caaggcgca 
      tacagcgat gctagaggt tacggaacg gctgctgcg 
      tatggaaca ccgggcggt tacggtgac acctacggg 
      gcgggtgct ggagggcgt ggctcgtat gatgccgcc 
      taccctcca ctaccccaa cagagagga ggttatttt 
      taa
    mRNA sequence
    • >TC009189 RA
      tgccagtcc gacgccata acgtccatt ttgttggtt 
      tgttttgtg tgttgccgg ttttgttaa aaatccatc 
      gaatttcga cgaaatgag ccgccgctc agaaaccac 
      aacgaaagt tttcgtggg cagtctgcc caacggagt 
      aaccacaga cgacttgcg ttccctttt cgcccccta 
      tggggctat cgccgaatg cgatatagc taaccggtg 
      cggtttcct ccaccttga agaccacga cttggccat 
      gaaagccat tgcggaact caacggtac caatttcat 
      gggtgggcg aatttccgt cgaaaaggg gcgggtgaa 
      acccagacg ggggcctgg gggcggcgg cccgatgcg 
      cgggggcaa agaccgggg cgggcctta cgcacgaag 
      cgactttcg cgggcctcc acaccgaaa cgggggctt 
      tggtggtgg gcgtgacta cccgcctta tgggggcgg 
      tgacaggtt tggggcgta tgacaggcc gccccaaag 
      gggcggcta cgacggggc gtacgccga ccggaggcc 
      gccgtacga tgaccgtcg gggggctgc gttcggcgc 
      cgagaggag gcccttcag tagcgattt tgatcgacg 
      tccgtatgc tgacgcccg tcctggggg cttcccgga 
      ggtgccacg agtcgatta cgacgatcg gcgaccccc 
      tgctgcgga attcgacga tcggaggcc gcttttagc 
      cgacaggag gcccctttt ggaccagca ggggccgcc 
      gccgccgag gggacccgc cgcgtttga caggggggc 
      tcccgtggc cgagctgta cagtcggag ggaccaagt 
      gcctaagcc attgggcgg ggctggggg ttttccgga 
      tcgtgtcgg ttacgcaac ggcgtcagc caatggtta 
      cacagcggg gtacggtag tccagcggc tccgccaac 
      tggcggtta cggaacgcc ggctcctcc aaccgctgg 
      gtatggcac aggggcggg gactttcgg tagtcccgc 
      ccctcaagg cgcatacag cgatgctag aggttacgg 
      aacggctgc tgcgtatgg aacaccggg cggttacgg 
      tgacaccta cggggcggg tgctggagg gcgtggctc 
      gtatgatgc cgcctaccc tccactacc ccaacagag 
      aggaggtta tttttaagc tggcgttgc gtttggagc 
      gacttctgt gtgcggtac ctcttttaa aagcggaaa 
      cgatagact cactagatt tagtcttct ttttttttc 
      taaggatgt gcggaattt ggctaaatt tgggtaaat 
      tttttcggt gcggtagga gtgtgtggt gcgccttat 
      atagattgg aaatggagc aaacgtcta cctgatttt 
      gcataatag attagtgtt tttttattg ttacattag 
      attagtttt aagtccggt tgggtagac tttttccga 
      ttgttttat tcaagctat aaatgtgaa aggagaaaa 
      aacgcaatt taagcgctc tatattttt aatttgcgg 
      tggcggcag attacgact aagcggtag agtgacaat 
      atttaaaaa tctgcgtgt tttctctaa ttttttaca 
      caaaagtgg cgcccctca taccttttt tactattct 
      ggaattaaa acaagcttg cgttgacat ctagatttt 
      attatacga atttccttt ttgtgaatt atgtatagt 
      tggcatgat ataagtaca cacaataaa aaaatgttt 
      ttttattaa atcggttat ttatcacca aacctctga 
      ctgagtgcg taacacacg cctaaagtt ggcggaaat 
      tgaacaaaa attcgattc cgttgtcgt ctttcgcaa 
      acgagtcta aaattcacg gcgctttaa tcagatccg 
      tctcgatta accaaaaaa acttcaatc aaatttcta 
      caattactt actagtttt ttcttcttc aa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY