Status
Please wait ...
Gene information
General information
TC001942 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: 1404316..1409420
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
    TC001942
    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_06425

    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: 100.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 4 (9 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: 20.0% (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: 2 (11 dpi)
    Days post injection


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 8 (11 dpi)
    Days post injection


    larva lethality late (L7) - Number of animals showing the phenotype: 8 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC001942 RA
      MADPKYADL PGIAHDEPD VYETNDLPE SEQAVDFFE 
      EENDSIERI HVSASEAFN KFKGKFLKA NNVDFSERI 
      SKKIRTGYD ARSGDWELV GEGEKETPL QKYQRLQCE 
      MKELMEEIT KIQAEKKGD DANCLVSSS QVEQALKKL 
      TDLKLEESL GAEVVSSIS DPQGTQIKK LLSQLEQFK 
      ASAREKTES QAESDGSGI VYQLNYRPE QARLAQTTR 
      VAELEGRLH RLESIMGSS NDKLTRLAS ATNKGTLLE 
      TAQHLSATA SLLDSAQLD HIEGRLSCL QQKLDAIAE 
      KKKEIAQDE EKDKM
    CDS sequence
    • >TC001942 RA
      atggctgat ccaaaatac gctgatttg cctggaatt 
      gcccatgac gagccagat gtttacgaa accaatgac 
      ctgccagag tcggagcaa gccgttgat tttttcgaa 
      gaagaaaac gactcaatc gagcgaatt cacgtttca 
      gcaagtgaa gcgttcaat aaattcaag ggcaagttt 
      ttgaaagcc aacaatgtc gatttttcc gaacgtatc 
      agtaaaaag atacggacg ggatacgat gccaggtca 
      ggcgattgg gagttggtt ggagagggc gaaaaggag 
      actccgttg caaaaatac cagcgattg caatgcgaa 
      atgaaggaa ttaatggaa gaaattacg aaaattcaa 
      gccgagaag aagggtgat gatgctaat tgtctcgtt 
      tccagtagt caagtcgaa caagcgctt aaaaaactg 
      actgacttg aaactagaa gagtctttg ggggctgaa 
      gttgtttcg agcatttct gacccacaa gggacgcaa 
      atcaaaaaa ttgttgtca caactggag cagttcaaa 
      gccagtgct cgtgaaaaa accgaatct caagccgaa 
      agtgacggt tccggtatt gtttaccag ttaaactat 
      cgaccggaa caagcacgt ttagctcaa acgactcga 
      gtggctgaa cttgaggga cgtttgcat cgtttggag 
      tcaattatg ggatcttct aacgataaa ttgactcga 
      ttggcgtcc gcaactaat aaaggaact ttattggag 
      acagcacag catttaagc gccacagct agtttacta 
      gattcggca caattggat catattgag ggacgcttg 
      tcttgtttg cagcaaaaa ttggatgct atagctgag 
      aaaaagaag gaaattgca caagatgaa gaaaaagat 
      aaaatg
    mRNA sequence
    • >TC001942 RA
      tgtgttatt taaaaacta taattaatt caataaagc 
      gcagaataa agtgtggag tgggacaga ttggtagcg 
      ctgattttt gacaggtgg caccctttt tgaggttac 
      gtccgttta agtcactta aaaatcaag tttttgcga 
      aatggctga tccaaaata cgctgattt gcctggaat 
      tgcccatga cgagccaga tgtttacga aaccaatga 
      cctgccaga gtcggagca agccgttga ttttttcga 
      agaagaaaa cgactcaat cgagcgaat tcacgtttc 
      agcaagtga agcgttcaa taaattcaa gggcaagtt 
      tttgaaagc caacaatgt cgatttttc cgaacgtat 
      cagtaaaaa gatacggac gggatacga tgccaggtc 
      aggcgattg ggagttggt tggagaggg cgaaaagga 
      gactccgtt gcaaaaata ccagcgatt gcaatgcga 
      aatgaagga attaatgga agaaattac gaaaattca 
      agccgagaa gaagggtga tgatgctaa ttgtctcgt 
      ttccagtag tcaagtcga acaagcgct taaaaaact 
      gactgactt gaaactaga agagtcttt gggggctga 
      agttgtttc gagcatttc tgacccaca agggacgca 
      aatcaaaaa attgttgtc acaactgga gcagttcaa 
      agccagtgc tcgtgaaaa aaccgaatc tcaagccga 
      aagtgacgg ttccggtat tgtttacca gttaaacta 
      tcgaccgga acaagcacg tttagctca aacgactcg 
      agtggctga acttgaggg acgtttgca tcgtttgga 
      gtcaattat gggatcttc taacgataa attgactcg 
      attggcgtc cgcaactaa taaaggaac tttattgga 
      gacagcaca gcatttaag cgccacagc tagtttact 
      agattcggc acaattgga tcatattga gggacgctt 
      gtcttgttt gcagcaaaa attggatgc tatagctga 
      gaaaaagaa ggaaattgc acaagatga agaaaaaga 
      taaaatgtg aattaagtt ttttttgga caaatatca 
      aaaaatagc aaggtcata atttggcaa gcatgattt 
      tccacatga acaatttgt ttgcgaata gaaaaaata 
      aaaatactt ttttaat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY