Status
Please wait ...
Gene information
General information
TC005661 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: 10011216..10032729
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
    TC005661
    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.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_02905

    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: < 50
    No observeable phenotype found.

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

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005661 RA
      MVLESGVLP PPLQLYAAA AAHLAPRPP WAPLLQFPG 
      AASLLGMPG AFAPLNRPR YPPGLGHGI RAPPGPPSE 
      DSGSETHTG KGGAGSSGE GADSESAAS KRRRSRTNF 
      NSWQLEELE RAFLASHYP DVFMREALA MRLDLKESR 
      VAVWFQNRR AKWRKKEHT KKGPGRPAH NAHPQSCSG 
      EPIPPAELR ARERARRRK KLQKALERQ AKKLRAKGI 
      AVDLVALKR EYLAQRGAD GADSDSDID VVGDSGAES 
      ETYACSDQG MFSSESGVD LTAASHDDK TRRLNPFSI 
      ESLLNT
    CDS sequence
    • >TC005661 RA
      atggtgctg gaatcgggg gtgttgccg ccacctttg 
      cagctgtat gcggcggcg gcggcacat ttggcgccg 
      cgaccgcca tgggccccc ttgttgcag ttccccggc 
      gctgccagt ctgctgggg atgccgggg gctttcgcc 
      cccctcaac aggccgcgg tatcctccg gggctgggg 
      cacggaatc cgggctccg ccgggaccg ccgtccgaa 
      gacagcggc agtgagacg cataccggg aaaggtggt 
      gccgggagc agtggcgaa ggcgccgat tccgagagt 
      gcagcctcc aagaggagg aggagtagg acgaatttt 
      aatagctgg cagttagaa gaattagaa agggccttt 
      ttggcgagc cactacccc gacgttttc atgagggag 
      gcgctcgcc atgcgacta gacttaaag gaaagcagg 
      gtggctgtg tggttccag aaccgtcga gccaagtgg 
      cgcaagaag gagcacacg aaaaaaggc cccggccga 
      ccggcccac aacgctcac ccgcagtcc tgctccgga 
      gagcccatc cctcccgcc gagctgcgg gcccgcgag 
      cgggcgcgt cgccggaaa aagctccag aaagctctg 
      gagcggcag gcgaagaag ctgcgcgcc aagggcatc 
      gccgtcgac ctcgtggcc ctcaagagg gagtatctg 
      gcccagagg ggtgcggac ggcgccgac agtgatagc 
      gatatagac gtggtgggg gattcgggc gcagaatcg 
      gaaacgtac gcttgtagc gatcagggg atgttctcc 
      tcggaatcg ggggtggat ttgaccgcc gcctcgcac 
      gacgacaag acccgcaga cttaacccc ttcagtata 
      gagtcgcta ctcaatact tga
    mRNA sequence
    • >TC005661 RA
      caacaagca ctggaaaca gacacgcaa tctagtgca 
      catggacta actcaaaac aacgaaact tagcaaatc 
      cagtgcgtg tgtaaacaa atgaccacc ggaacaaaa 
      aaatgaaaa gcggtgaat tccgggatc gagtgctcc 
      cggagtgtt cttgtgcac aatgactcg atgaaacag 
      tgttggccg gtggaagtc cagtgactc gaaaatgga 
      tctagacac cagtgattt cagtgattg actcatttg 
      cgccctcac agtgaaccc caacgatat ggtgctgga 
      atcgggggt gttgccgcc acctttgca gctgtatgc 
      ggcggcggc ggcacattt ggcgccgcg accgccatg 
      ggccccctt gttgcagtt ccccggcgc tgccagtct 
      gctggggat gccgggggc tttcgcccc cctcaacag 
      gccgcggta tcctccggg gctggggca cggaatccg 
      ggctccgcc gggaccgcc gtccgaaga cagcggcag 
      tgagacgca taccgggaa aggtggtgc cgggagcag 
      tggcgaagg cgccgattc cgagagtgc agcctccaa 
      gaggaggag gagtaggac gaattttaa tagctggca 
      gttagaaga attagaaag ggccttttt ggcgagcca 
      ctaccccga cgttttcat gagggaggc gctcgccat 
      gcgactaga cttaaagga aagcagggt ggctgtgtg 
      gttccagaa ccgtcgagc caagtggcg caagaagga 
      gcacacgaa aaaaggccc cggccgacc ggcccacaa 
      cgctcaccc gcagtcctg ctccggaga gcccatccc 
      tcccgccga gctgcgggc ccgcgagcg ggcgcgtcg 
      ccggaaaaa gctccagaa agctctgga gcggcaggc 
      gaagaagct gcgcgccaa gggcatcgc cgtcgacct 
      cgtggccct caagaggga gtatctggc ccagagggg 
      tgcggacgg cgccgacag tgatagcga tatagacgt 
      ggtggggga ttcgggcgc agaatcgga aacgtacgc 
      ttgtagcga tcaggggat gttctcctc ggaatcggg 
      ggtggattt gaccgccgc ctcgcacga cgacaagac 
      ccgcagact taacccctt cagtataga gtcgctact 
      caatacttg aagatgctc ggagatgaa acatgttgt 
      gcaataatg ttttatatc tagtgatag gtgcgagaa 
      cagcgagag cttcgacat ttccgaccg atttttcca 
      cacacatat cacaagctg atccggaaa tgccggaat 
      ctcacatat ttattgaat ataaagtgt acatatagt 
      ctaaacgac cctgtgtat aaacgtccc agacattcc 
      agtactgta tttattaat atgattagt aataacaca 
      catagtaca gcaatacat ccagcaagt tcaaattgt 
      ttagaatac acttaaact cttcgtgca tgtcgtcct 
      attttagtt aagttcatg taccacagc ttgattcca 
      atattacca gttattcat tgttttatc ggacaatat 
      ggaaaacaa caacgaata tcgcgtcac aacgttaat 
      ggaaatgaa taatattgt tatcaagct ttgaatgta 
      ttcctatca gtgatctgc agtactaat atatcaaat 
      taattaag
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY