Status
Please wait ...
Gene information
General information
TC006100 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_007423.3: 2455828..2457311
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
    TC006100
    Gene ontology

    GO terms for Tribolium

    • {{ goTerm.term }}
      ({{ goTerm.evidence }}){{ goTerm.evidenceTooltip }}
      {{goTerm.showAll ? '[-]' : '[+]'}}
      Status: {{ goTerm.status }}
      Evidence: {{ goTerm.evidence }} ({{ goTerm.evidenceTooltip }})
      Reference: {{ goTerm.referenceText }}
      Quotation: {{ goTerm.quotation }}
      Submitter: {{ goTerm.name }}

    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
    {{ goGene }}
    The Tribolium gene the GO term is assigned to.
    GO ID *
    {{ blurIdResult }}
    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
    {{ blurEvidenceResult }}
    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 *
    {{ blurReferenceResult }}
    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
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
      {{ unavailableText }}

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00993

    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: 0.0% (includes death as pupa, adult)

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    legs structure irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    Comment: taken into account the hatched larvae as well!
    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: 40.0% (includes death as larva, prepupa, pupa, adult)

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


    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006100 RA
      MEALRYTAK TKKLELAKT EVPKITSPD SILVKVAYS 
      GICGTDLHI IQGEFPCNP DRTFTLGHE FSGTVVEVG 
      PKVTNFKAG DRVSVDPNS GCKCCKFCH SGKPHFCKV 
      GGINNTIGI YRDGGWANY VVCPEEQVH KLPDSITLE 
      QAALTEPVS CLAHGWDIV SPIHVGDKI LVTGAGIIG 
      NLWVCALHL QGHRNVTVS EPNASRLEM LKKLNTGYN 
      LITPDQLKR NQAADPNYL FDVVIDCSG FPPAVEHAV 
      SLLNSGGKL CIFGVAPPH GKITIAPFD IYMKEMKIF 
      GVNINPFSF PKSLGLLEA MGDRYMNYN LLGIRTFAL 
      SQYQEAIEC LKKGTIAKA VFKL
    CDS sequence
    • >TC006100 RA
      atggaagct ctacgctac accgccaaa accaaaaaa 
      cttgagttg gctaaaact gaagtccct aaaatcact 
      agcccggac agtattttg gtcaaagtg gcttattct 
      gggatttgc ggaaccgac ttacacata atccagggg 
      gaattcccg tgcaacccg gaccgcact ttcacccta 
      ggccacgag ttttcgggc actgtggtc gaagtgggc 
      cccaaagtg accaatttt aaggccggt gaccgggtt 
      tcagtcgat ccgaacagt ggttgcaaa tgttgcaag 
      ttctgccat tcggggaaa ccccacttt tgcaaagtg 
      gggggaatt aacaacacc atcgggatt taccgagac 
      ggtgggtgg gcgaattac gtggtctgc cccgaggag 
      caggtgcac aaactccct gacagcatc accctagag 
      caagccgct ttgaccgaa ccggtgtcg tgtttggcc 
      cacggctgg gacatcgtg agccccatc cacgtcggg 
      gataaaatc ctagtgacg ggggcgggg attattggg 
      aatttgtgg gtttgcgcc ttgcatctg caaggtcac 
      aggaatgtc acagtttcc gaaccgaat gcctcacga 
      ttggagatg ttgaaaaag ttgaatacg ggttacaat 
      ttaattaca cctgatcag ttgaagcgg aatcaagcc 
      gccgatccg aattacctc ttcgacgtg gtcattgat 
      tgtagtggg tttccccca gctgtggag cacgctgtc 
      tcgcttttg aattctggc gggaaattg tgtattttt 
      ggggtggcg cccccgcat ggtaaaatc acgattgct 
      ccgtttgat atttacatg aaggagatg aaaattttc 
      ggtgttaat attaacccg tttagtttt cccaaatcg 
      ttgggcttg ctggaggca atgggtgac agatacatg 
      aattataat cttttggga attaggacg tttgctctg 
      agtcagtac caggaggcc attgagtgt ctgaagaag 
      ggcacgatt gccaaggca gtatttaag ctgtga
    mRNA sequence
    • >TC006100 RA
      gtcagttca taacatata aataaaagt cgcttcaca 
      aattgtaac acttttctg ccaagtgtt accaaccat 
      ggaagctct acgctacac cgccaaaac caaaaaact 
      tgagttggc taaaactga agtccctaa aatcactag 
      cccggacag tattttggt caaagtggc ttattctgg 
      gatttgcgg aaccgactt acacataat ccaggggga 
      attcccgtg caacccgga ccgcacttt caccctagg 
      ccacgagtt ttcgggcac tgtggtcga agtgggccc 
      caaagtgac caattttaa ggccggtga ccgggtttc 
      agtcgatcc gaacagtgg ttgcaaatg ttgcaagtt 
      ctgccattc ggggaaacc ccacttttg caaagtggg 
      gggaattaa caacaccat cgggattta ccgagacgg 
      tgggtgggc gaattacgt ggtctgccc cgaggagca 
      ggtgcacaa actccctga cagcatcac cctagagca 
      agccgcttt gaccgaacc ggtgtcgtg tttggccca 
      cggctggga catcgtgag ccccatcca cgtcgggga 
      taaaatcct agtgacggg ggcggggat tattgggaa 
      tttgtgggt ttgcgcctt gcatctgca aggtcacag 
      gaatgtcac agtttccga accgaatgc ctcacgatt 
      ggagatgtt gaaaaagtt gaatacggg ttacaattt 
      aattacacc tgatcagtt gaagcggaa tcaagccgc 
      cgatccgaa ttacctctt cgacgtggt cattgattg 
      tagtgggtt tcccccagc tgtggagca cgctgtctc 
      gcttttgaa ttctggcgg gaaattgtg tatttttgg 
      ggtggcgcc cccgcatgg taaaatcac gattgctcc 
      gtttgatat ttacatgaa ggagatgaa aattttcgg 
      tgttaatat taacccgtt tagttttcc caaatcgtt 
      gggcttgct ggaggcaat gggtgacag atacatgaa 
      ttataatct tttgggaat taggacgtt tgctctgag 
      tcagtacca ggaggccat tgagtgtct gaagaaggg 
      cacgattgc caaggcagt atttaagct gtgaatttg 
      ttaaataaa aaactgttg gaaat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY