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Gene information
General information
TC011913 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_007424.3: 11732035..11733732
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
    TC011913
    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_05123

    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: 40.0% (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: 2 (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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011913 RA
      MCSNKHVGR LNLDDSPYD QDTYWGRFR HYFQRTNPF 
      HLLTSSDTL EDSKCLYLK YRCGEPLAA DVTEDEVWR 
      AKALFESAY NPETGEKIN FWARPAAFI PVNMVLAGG 
      MMAYYKSTP GVVFWQWLN QTYNTWVGY KNKGSDDEI 
      TNTQLITSY VVATGTAIG TALGLNRLL VNSPALVGR 
      FVPFVAVAA AHCVGTPLL KAQILKNGT PIYDDCHNK 
      LGYSKNAAY ASISDSIMN KIFIAVPPM LLTPLVMNY 
      LERRGTLCR YPWVNFPAH VGFAGLFLT FLSPLAYAL 
      YAQRPHMPY KHLETDLRE ALCKKFYDR PPKFVYYEQ 
      SV
    CDS sequence
    • >TC011913 RA
      atgtgcagc aacaaacat gtaggaaga ctcaatctc 
      gacgactct ccgtacgac caagacacg tactggggt 
      cgcttccgc cactatttc cagcgaacc aaccctttc 
      cacctcctc accagctcc gacacactc gaagactcc 
      aaatgcctc tacctcaaa taccgatgc ggggagcct 
      ctggcggcc gatgtgacc gaagacgaa gtctggcga 
      gccaaagcc ctgttcgaa tcggcttac aatccagaa 
      accggcgag aaaataaac ttctgggcc cggcctgcg 
      gccttcatc cccgtcaac atggtccta gctgggggc 
      atgatggcc tattacaag tccactccg ggggtggtt 
      ttctggcag tggttgaat caaacgtac aacacgtgg 
      gtcggttac aagaataag ggctcggat gatgaaatc 
      accaacacg caattgatc acgagctac gtggtggcc 
      actggtact gccataggc accgccttg gggctaaac 
      cggcttttg gtcaactcg cccgctctg gtggggcgg 
      tttgtgccg ttcgtggcc gtggcggcg gcgcactgt 
      gtcggcacg ccactgctg aaggcccaa attctcaag 
      aatggtacc ccgatttat gacgactgt cacaacaaa 
      ctggggtac tcgaagaac gcagcttat gcatcgatt 
      agtgactcc attatgaac aaaattttc atcgccgtg 
      ccccccatg ttactgacc ccgctagtg atgaactat 
      ctagaacga aggggcacc ttgtgccgg tacccctgg 
      gtgaatttc ccggcccat gttggtttc gccggtctc 
      ttcctgacc ttcctatcg cccttggct tacgccctg 
      tacgcccaa agaccgcac atgccttac aagcactta 
      gaaaccgat ctgagggag gctctctgt aaaaaattc 
      tacgaccgt ccccccaaa ttcgtttac tacgagcaa 
      agtgtatag
    mRNA sequence
    • >TC011913 RA
      atttttcaa atagagcaa ctgaaaaaa aaataagaa 
      aatattaaa gttgtaacg gaaggaaac cagaaaatt 
      aaattcata tagaaatta tttttgttt aaaagaaaa 
      aacgttagt tataatttc aataaaata agcaagtta 
      ttttcaatg ggagctcca cacccatga ccaaacttc 
      catgggccc acgtagtcg gcgcccgtg aacccagca 
      gaacatcct tctgttgaa gtgaaaaaa tccactgtc 
      acaaccaat tgtcaatgt catcagtct tttccacaa 
      ccatacaat tatcagcca tgttcagca ccaaatcct 
      ctcaaaatt gaaccaatc gtgaaaaat gtgcagcaa 
      caaacatgt aggaagact caatctcga cgactctcc 
      gtacgacca agacacgta ctggggtcg cttccgcca 
      ctatttcca gcgaaccaa ccctttcca cctcctcac 
      cagctccga cacactcga agactccaa atgcctcta 
      cctcaaata ccgatgcgg ggagcctct ggcggccga 
      tgtgaccga agacgaagt ctggcgagc caaagccct 
      gttcgaatc ggcttacaa tccagaaac cggcgagaa 
      aataaactt ctgggcccg gcctgcggc cttcatccc 
      cgtcaacat ggtcctagc tgggggcat gatggccta 
      ttacaagtc cactccggg ggtggtttt ctggcagtg 
      gttgaatca aacgtacaa cacgtgggt cggttacaa 
      gaataaggg ctcggatga tgaaatcac caacacgca 
      attgatcac gagctacgt ggtggccac tggtactgc 
      cataggcac cgccttggg gctaaaccg gcttttggt 
      caactcgcc cgctctggt ggggcggtt tgtgccgtt 
      cgtggccgt ggcggcggc gcactgtgt cggcacgcc 
      actgctgaa ggcccaaat tctcaagaa tggtacccc 
      gatttatga cgactgtca caacaaact ggggtactc 
      gaagaacgc agcttatgc atcgattag tgactccat 
      tatgaacaa aattttcat cgccgtgcc ccccatgtt 
      actgacccc gctagtgat gaactatct agaacgaag 
      gggcacctt gtgccggta cccctgggt gaatttccc 
      ggcccatgt tggtttcgc cggtctctt cctgacctt 
      cctatcgcc cttggctta cgccctgta cgcccaaag 
      accgcacat gccttacaa gcacttaga aaccgatct 
      gagggaggc tctctgtaa aaaattcta cgaccgtcc 
      ccccaaatt cgtttacta cgagcaaag tgtatagtt 
      ccgtttccg taaaataaa acccttt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY