Status
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Gene information
General information
TC009645 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: 3584878..3587064
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
    TC009645
    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
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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_01590

    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 (9 dpi)
    Days post injection


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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 early (L5/6) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (41 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009645 RA
      MPAHAERLT RPKNMSEEL SGVTVVIII GLGVLTFIL 
      LFIFAKRQI MRFALRSRR GPHVPIGHD GPKVLKREI 
      ERRIDVIPR IICDPQLIS KKDPRYIVY PGQQIPAHY 
      YRLKAVDDV KTLESEITR QDSAFYRHP SENLRAYLL 
      TTLAAPLNG SGQRLIHQF CDLYEHARH DPNPFGDEE 
      YQQYNRLLM KLIDASKLL KAYNSRKSS PNRTPHRQK 
      QPQEKNKNL LDPTRLHPL PPNFAEDEV LAVSDSRPT 
      SLSIPLADN ETSV
    CDS sequence
    • >TC009645 RA
      atgcctgcc cacgctgag cgactcacg cgccccaaa 
      aacatgtct gaggagtta tcgggagtg actgttgtg 
      ataatcatc ggtttaggt gtgttgact ttcatccta 
      ctgttcatt ttcgccaag aggcaaata atgcggttt 
      gcgctgcgg tcccgccgc ggcccccac gttccgatc 
      gggcacgac ggccccaag gtcctgaag cgcgaaatt 
      gagcgccga attgatgtg attccccga atcatttgt 
      gacccccag ctgatcagt aaaaaggac ccgaggtac 
      attgtgtac cccggccag caaattccg gctcactat 
      taccggctc aaagccgtc gatgatgtg aaaacttta 
      gagtctgaa atcacgaga caggatagc gcgttttac 
      cgccaccct agcgagaat ctccgagct tatttgttg 
      acgactttg gcggccccc ttgaacggg agcggccaa 
      aggctgatt caccaattt tgcgatctg tacgagcac 
      gcaagacat gaccccaac cccttcggt gacgaggag 
      taccaacag tataaccgg cttttaatg aaattaatc 
      gacgcttct aagctgctt aaagcctac aacagtcgg 
      aaatcgtcg ccgaatcgg acgccacat cgacaaaaa 
      caaccacaa gagaaaaat aaaaattta ttggaccca 
      actagatta catccattg cctccgaac tttgccgaa 
      gacgaggtt ttggccgtt tcggattca cgacccacg 
      tcactgagc atcccattg gccgataac gagacttca 
      gtatga
    mRNA sequence
    • >TC009645 RA
      ccttgacgt ttattatgt cataaatta aaataaaca 
      aatcgttaa ttaatgggt gattttgta tgaaaatag 
      tgccgtttt gaggtaaat caggtgata agaggcgta 
      atgtcgctg tgaagtgtt aaattcgtg tcttgcccc 
      ccttgttgc gcgccccaa tgcctgccc acgctgagc 
      gactcacgc gccccaaaa acatgtctg aggagttat 
      cgggagtga ctgttgtga taatcatcg gtttaggtg 
      tgttgactt tcatcctac tgttcattt tcgccaaga 
      ggcaaataa tgcggtttg cgctgcggt cccgccgcg 
      gcccccacg ttccgatcg ggcacgacg gccccaagg 
      tcctgaagc gcgaaattg agcgccgaa ttgatgtga 
      ttccccgaa tcatttgtg acccccagc tgatcagta 
      aaaaggacc cgaggtaca ttgtgtacc ccggccagc 
      aaattccgg ctcactatt accggctca aagccgtcg 
      atgatgtga aaactttag agtctgaaa tcacgagac 
      aggatagcg cgttttacc gccacccta gcgagaatc 
      tccgagctt atttgttga cgactttgg cggccccct 
      tgaacggga gcggccaaa ggctgattc accaatttt 
      gcgatctgt acgagcacg caagacatg accccaacc 
      ccttcggtg acgaggagt accaacagt ataaccggc 
      ttttaatga aattaatcg acgcttcta agctgctta 
      aagcctaca acagtcgga aatcgtcgc cgaatcgga 
      cgccacatc gacaaaaac aaccacaag agaaaaata 
      aaaatttat tggacccaa ctagattac atccattgc 
      ctccgaact ttgccgaag acgaggttt tggccgttt 
      cggattcac gacccacgt cactgagca tcccattgg 
      ccgataacg agacttcag tatgatcca cattcgagg 
      tttagatat ttggtccat ttcatgttt ttgcaaaat 
      tccgattcg tgtcgcaaa cttttcaaa gtggataac 
      accatgtcg gtgaatccc cggtttagg gtttttgcc 
      gtgtacgtg tggtgaaac cactcaaga gcctgaaaa 
      tcgggcgtt ttaaattct gaaaattcg aaaagtccg 
      gacctgtgt cacacaaat gctccaatg attgacgtc 
      caaaagcgt ggcaatggc ccgagggaa cttttcgta 
      catttcctc acttttgta accctctac aaaggccaa 
      atgtccgga aaatacgag cgtggcgag tacgaaaac 
      atcgctcaa gaattgtat ttctttaac gtccgattt 
      tgtgattgc ctgaatctg gccgagtaa ttccaacag 
      ccacagcac acattcggt gttgttttg gtgtttttg 
      gaacacttg agcgaagtt ttcgaacat gaaaggtgt 
      gacactaga aaggaattt ttacgactt tgatcattt 
      caattggct gttaattac gttgggaat ttgcagccg 
      tgttcgatt aattcatta agcaggttt aaaggtgac 
      tcttgggtg attacagcc aaagacgag cggattttt 
      accgctttt ttgaaccat tcgtttcgc atttctttg 
      accgtttta ggcgaggtc aagtcattt atgcatttc 
      attgggaaa tggacaaca cagtcaagc aaaacttga 
      cataactgc aaaaaatta tcaagcgac tgattttct 
      catgccggg tggctacta aagactggt tcttgtcag 
      tgtcaatta attttttgg cacaaactt ataggcacc 
      cggtattta cctttgatg taatcgaag tttcggcca 
      aaatgtcac tgattattt gcgcaatta cgattttgt 
      tagcctctt gtatctctt tgttacgta aagtgtttt 
      ttacgtaga ttagtattt cgtttaatt gtttttcgt 
      ctccgtttt taaataaat caacacttg ttgtaatgg 
      ttgtttcga ggaatgggc gcagtgtga atggttgga 
      cgctgtttg cgaggtatt gcaagttgg agtaaacgt 
      gcaaaacgt ctggctcct gaaaaaaat aaaacaagg 
      aaaattta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY