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Gene information
General information
TC009261 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: 2250228..2251985
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
    TC009261
    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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    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_04607

    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: 80.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 6 (11 dpi)
    Days post injection


    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: 100.0% (includes death as larva, prepupa, pupa, adult)

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


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 7 (11 dpi)
    Days post injection


    larva lethality late (L7) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 5 (16 dpi)
    Days post injection


    pupal molt not fulfilled (died as L7 or prepupa) - Number of animals showing the phenotype: 5 (19 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009261 RA
      MGILGLSKL LADVAPHAI REGEIKHYF GRKVAIDAS 
      MCLYQFLIA VRNESGQLT SVDGETTSH LLGTFYRTI 
      RLIENGIKP VYVFDGKPP ELKSAELSK RQERRDEAQ 
      KALDKATEL GDATEVDKF NRRLVKVTR HHADEAKQL 
      LTLMGVPYI EAPCEAEAQ CAAMVKGGL VYATATEDM 
      DALTFGSNV LLRHLTFSE ARKMPVQEI HLSKVLEGL 
      ELDQKAFVD LCILLGCDY TESIRGIGP KRAIELIKK 
      HKSIEEILK NIDVKKYPP PENWNYEGA RQLFEEPEV 
      MDAAKIELK WTDPDEEGM VKFLCGDKQ FNEERVRNG 
      VKKLLKSRS TSTQGRLDG FFTVLSTTP AKRKAENKK 
      ETPNKKKKT GAGAGRGRA KPK
    CDS sequence
    • >TC009261 RA
      atgggtatt ttgggctta tcgaaactt ctggccgat 
      gtggccccc catgccatc cgcgagggc gaaatcaag 
      cactatttc ggccgcaaa gtggcaatt gacgcctca 
      atgtgtctc taccagttc ctgatagcc gtccgcaac 
      gagtccggt cagttgacc tcagtcgac ggcgagacc 
      acctctcac ctcctcggc accttctac cgcacaatc 
      cgtctcata gaaaacggc ataaaaccc gtttacgtt 
      ttcgacggt aaacccccc gaattaaaa tcagccgag 
      ctctccaag cgccaagag cgccgcgac gaggcgcag 
      aaagccctc gataaagcc accgagctg ggggacgcc 
      acagaagtg gacaaattc aaccggcgc ttggtcaaa 
      gtgacgcgc caccacgcc gacgaggcc aaacaacta 
      ctcaccttg atgggggtt ccgtatatt gaggccccc 
      tgtgaggcg gaggcccag tgcgcggct atggtcaaa 
      ggggggctg gtctatgcc accgcaacg gaggatatg 
      gacgcgctg acgttcggc tcaaatgtc ttgctgaga 
      cacttgacg tttagcgag gcgaggaaa atgcccgtc 
      caggagatt catctgagc aaggtcttg gaggggctt 
      gagctggac cagaaggcg ttcgtggat ttatgtatt 
      ttgctgggg tgcgattat acggagagt attaggggg 
      attgggccc aagagggcc attgagttg atcaaaaaa 
      cacaaaagt attgaagaa attttgaaa aatatcgat 
      gtgaaaaag taccccccg cccgagaat tggaactac 
      gagggggcc cgacagctg tttgaggag cccgaagtc 
      atggatgcg gccaaaatt gagttgaaa tggaccgac 
      cctgacgaa gagggcatg gtgaaattc ctctgtggc 
      gacaaacaa ttcaatgag gaacgtgtc cgaaacggc 
      gttaagaaa ttactaaaa tcacgttcg accagtact 
      cagggccgg ctcgacggg tttttcacc gttttgtca 
      acaacgcca gctaaacga aaagccgaa aacaagaaa 
      gaaacaccc aataagaaa aagaagact ggtgcaggt 
      gccggcaga gggcgtgct aaacccaag taa
    mRNA sequence
    • >TC009261 RA
      cggcggtag cataacccc aaaacgcgc caattttac 
      cgaataact agcgtttcc acaagtgtc acgctaaaa 
      taaatgtgt tccaccgct cgaaagaca cttaactca 
      ccctagcgg gtccaaaac cgccccaaa agtgtttaa 
      ttaccaaac gtgaaattt gcggttatg ttagagtgc 
      gcgggaaat tgagccaag ccagcaatg ggtattttg 
      ggcttatcg aaacttctg gccgatgtg gccccccat 
      gccatccgc gagggcgaa atcaagcac tatttcggc 
      cgcaaagtg gcaattgac gcctcaatg tgtctctac 
      cagttcctg atagccgtc cgcaacgag tccggtcag 
      ttgacctca gtcgacggc gagaccacc tctcacctc 
      ctcggcacc ttctaccgc acaatccgt ctcatagaa 
      aacggcata aaacccgtt tacgttttc gacggtaaa 
      ccccccgaa ttaaaatca gccgagctc tccaagcgc 
      caagagcgc cgcgacgag gcgcagaaa gccctcgat 
      aaagccacc gagctgggg gacgccaca gaagtggac 
      aaattcaac cggcgcttg gtcaaagtg acgcgccac 
      cacgccgac gaggccaaa caactactc accttgatg 
      ggggttccg tatattgag gccccctgt gaggcggag 
      gcccagtgc gcggctatg gtcaaaggg gggctggtc 
      tatgccacc gcaacggag gatatggac gcgctgacg 
      ttcggctca aatgtcttg ctgagacac ttgacgttt 
      agcgaggcg aggaaaatg cccgtccag gagattcat 
      ctgagcaag gtcttggag gggcttgag ctggaccag 
      aaggcgttc gtggattta tgtattttg ctggggtgc 
      gattatacg gagagtatt agggggatt gggcccaag 
      agggccatt gagttgatc aaaaaacac aaaagtatt 
      gaagaaatt ttgaaaaat atcgatgtg aaaaagtac 
      cccccgccc gagaattgg aactacgag ggggcccga 
      cagctgttt gaggagccc gaagtcatg gatgcggcc 
      aaaattgag ttgaaatgg accgaccct gacgaagag 
      ggcatggtg aaattcctc tgtggcgac aaacaattc 
      aatgaggaa cgtgtccga aacggcgtt aagaaatta 
      ctaaaatca cgttcgacc agtactcag ggccggctc 
      gacgggttt ttcaccgtt ttgtcaaca acgccagct 
      aaacgaaaa gccgaaaac aagaaagaa acacccaat 
      aagaaaaag aagactggt gcaggtgcc ggcagaggg 
      cgtgctaaa cccaagtaa taatctcaa atatttatt 
      tttataaaa ctt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY