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Gene information
General information
TC015688 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_007421.3: 4876920..4883392
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
    TC015688
    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_05871

    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: 3 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (11 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: % (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
    • >TC015688 RA
      MDQSTQVDF PIVVRKMRR HNTSADLYA TNKGHSNTW 
      NNSNKVSMP RPKSLNFPD PLTNRTKII YYSDSPLSR 
      LPLPVSDLH LGSISRERT PPFSCSSSV ASTSSPTYK 
      PDPSCQCSN DSIYCRRIP ANSTQGLSW RRLHMSRAK 
      LKATATTSE LLSGFAMVA MVELQINDD TAVPEWLFV 
      IFAVCTTVL VAVHIFALM ISTYILPNI DAVAKLEIC 
      EMVAESPHE RMRGFIELA WAFSTVLGL FLFLVEVAI 
      LCWVKFWDY SFTAATAAT VIVIPVLIT FVLFAVHFY 
      HSLVVYKCN ASVNDMEKL ENMKKHLDE VTSPV
    CDS sequence
    • >TC015688 RA
      atggaccaa tcaacccaa gtcgacttt cctatagtt 
      gtccgaaaa atgcgaaga cacaacact tcggccgat 
      ttgtacgca acaaacaaa ggacatagc aatacttgg 
      aataattcg aataaggtg tcgatgccc cgccccaaa 
      tccctcaac ttccccgac ccgctgacc aatcgcacc 
      aaaatcatc tactactcg gacagcccc ttgtcgcgc 
      ctgcccctc cccgtgagc gatctccac ttgggctcc 
      atctcgcgc gagcggact ccgcccttt tcctgcagt 
      tcgagcgtt gcctccacc tcttccccc acctacaag 
      cccgaccct tcgtgtcaa tgctccaat gacagcatc 
      tactgccgg cgtatcccc gccaatagc acgcaagga 
      ttgtcatgg cgccgccta cacatgtca cgtgccaaa 
      ctcaaagcc accgctacc accagcgaa cttctttcg 
      ggctttgcg atggtcgca atggtcgaa ttgcagata 
      aatgacgac acggcggtt cccgaatgg ttatttgtg 
      attttcgct gtttgtacc actgtgtta gtagcagtg 
      catattttt gcacttatg atttcgacg tatattttg 
      ccaaacatt gacgctgtt gctaagtta gaaatatgt 
      gaaatggtg gctgagagt ccgcatgaa cgcatgcgg 
      gggtttatc gagttggcg tgggctttt tcaacagta 
      ttaggtcta ttcctgttt ttggtggaa gtagccatt 
      ctttgctgg gtcaaattt tgggactac tcgtttacg 
      gcagcgacg gccgccact gttattgtt attccagta 
      ttgataact ttcgtcttg tttgctgtt catttctac 
      cattcactt gttgtgtac aaatgcaat gcttcagta 
      aacgacatg gaaaagtta gaaaatatg aaaaaacat 
      cttgacgaa gttaccagt cctgtgtga
    mRNA sequence
    • >TC015688 RA
      cgagtccaa agtccaaag accacaaat ttcctatcc 
      gaagaacac acgaagaga ggaaaaaga tccaaagtt 
      cgtgcgaac gacggtttg gatgatgac cgactttaa 
      aaaaccact gtaggtcag taccgacag gtgagaccg 
      tgaattcac tcgcggtac tgccgcggt accgtctag 
      ttcgtttgg ttttcggtt tgtgttcca agtgccatt 
      ttttcaagt accaaagag atttcgtcg aaaatggac 
      caatcaacc caagtcgac tttcctata gttgtccga 
      aaaatgcga agacacaac acttcggcc gatttgtac 
      gcaacaaac aaaggacat agcaatact tggaataat 
      tcgaataag gtgtcgatg ccccgcccc aaatccctc 
      aacttcccc gacccgctg accaatcgc accaaaatc 
      atctactac tcggacagc cccttgtcg cgcctgccc 
      ctccccgtg agcgatctc cacttgggc tccatctcg 
      cgcgagcgg actccgccc ttttcctgc agttcgagc 
      gttgcctcc acctcttcc cccacctac aagcccgac 
      ccttcgtgt caatgctcc aatgacagc atctactgc 
      cggcgtatc cccgccaat agcacgcaa ggattgtca 
      tggcgccgc ctacacatg tcacgtgcc aaactcaaa 
      gccaccgct accaccagc gaacttctt tcgggcttt 
      gcgatggtc gcaatggtc gaattgcag ataaatgac 
      gacacggcg gttcccgaa tggttattt gtgattttc 
      gctgtttgt accactgtg ttagtagca gtgcatatt 
      tttgcactt atgatttcg acgtatatt ttgccaaac 
      attgacgct gttgctaag ttagaaata tgtgaaatg 
      gtggctgag agtccgcat gaacgcatg cgggggttt 
      atcgagttg gcgtgggct ttttcaaca gtattaggt 
      ctattcctg tttttggtg gaagtagcc attctttgc 
      tgggtcaaa ttttgggac tactcgttt acggcagcg 
      acggccgcc actgttatt gttattcca gtattgata 
      actttcgtc ttgtttgct gttcatttc taccattca 
      cttgttgtg tacaaatgc aatgcttca gtaaacgac 
      atggaaaag ttagaaaat atgaaaaaa catcttgac 
      gaagttacc agtcctgtg tgattataa ccagtattt 
      cttgtaatt taaaattaa ttaaattat aataaaaaa 
      tgcttcctt tgtacgtaa gacgctctt cttttaaaa 
      ctatttcca gtttatcaa tcctcacaa gtcgacttt 
      tttcccttt ctttttttt tcaaaatgc tattttcca 
      ggctttctt gaaaagtta gatttattt catcttctt 
      ctgttgttg tttattaaa aataaaaaa tttggattt 
      tt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY