Status
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Gene information
General information
TC030676 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_007420.3: 13178221..13185174
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
    TC030676
    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_08408

    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: 18.18% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (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
    • >TC030676 RA
      MDDSIPSNK TESLCRVCG DKASGKHYG VSSCDGCRG 
      FFKRSIRRN LEYVCKENG RCIVDVTRR NQCQACRFK 
      KCLQVNMKR DAVQHERAP RSTQSGLHQ YPLSFGSRL 
      RSLHTSVFS TLPLHTPTL DTPATLPGH YLHQNYLYP 
      GMLGSFPKP NLVPGPLAF YNKPPHPAM LNLASRTSL 
      KDDEVTSSE EAKEREKSP SEETLDEKT NLELPLMTE 
      SCKPVLRPL DIPCLSLFP AENVYESAA KLLFLAIKW 
      AKSIPSFLQ LSYRDQSIL LEESWSELF VLTAAQWAF 
      PVDETLLVS NAIAPTSRH AALEEDARR LREIITRLT 
      LLRVDHTEH ACLKALVLF KSECRGLCE PSHVELLQD 
      QTHVMLNEY CNQRQTKGR FGKLLLTLP AVQAVTRRG 
      LEELIFRQT VGDVAIDRL LTDLAKATH
    CDS sequence
    • >TC030676 RA
      atggatgat tcaatcccg tcgaacaaa accgagtct 
      ctttgccgc gtttgcggc gacaaagct tcaggaaaa 
      cactacggc gtgtccagt tgcgacggc tgtcggggc 
      tttttcaaa cgcagcata cgacgcaac ttggagtac 
      gtgtgcaag gaaaacggc cgttgcatc gtcgacgtc 
      acccgaaga aatcaatgc caagcgtgt cgcttcaaa 
      aaatgtctt caagtcaac atgaaaaga gacgcagtc 
      cagcatgag cgagcccca cggtcaaca caatcaggc 
      cttcaccag taccccctc agtttcgga agccgcttg 
      aggagtctc cacacttcc gtcttctca actcttccc 
      ctacacacc ccaaccctt gacaccccc gcaactcta 
      cctggacat tacctccac caaaactat ctctaccca 
      ggaatgttg gggtcgttc ccgaaacct aatctagtc 
      ccaggaccc ttagcattc tataacaaa ccacctcat 
      ccagcaatg ttaaatctc gcgtcccga acgagccta 
      aaagacgac gaagtcaca agttcggaa gaggcaaaa 
      gagcgggaa aaaagccca tctgaggaa accctggac 
      gagaaaact aacctagag ctaccacta atgaccgag 
      tcttgcaaa ccagtccta agacccttg gacatcccc 
      tgcctcagc ctattcccg gccgaaaac gtgtacgaa 
      tccgccgct aaactcctc tttctcgcc ataaaatgg 
      gccaaaagc atcccctca ttcctgcaa ttgtcctac 
      cgcgaccag tcaatcctc cttgaggag agctggagc 
      gagctgttc gtcctgaca gcggcccag tgggccttc 
      ccggtcgat gaaacactt ttagtcagc aatgccatt 
      gctccaacg tcccggcac gcagccctt gaggaggat 
      gcgcgccgt ttgagggag attatcaca agattgact 
      cttttgcgg gtcgaccac accgaacat gcgtgtctt 
      aaagctttg gttcttttt aagtcggaa tgtcgcggg 
      ttgtgcgag ccaagtcat gtcgagcta ttgcaagat 
      cagacgcat gtcatgctg aatgagtac tgcaatcag 
      aggcagacc aaaggcagg ttcgggaag ttgctgctt 
      accctacca gcggttcag gcggttacg aggagaggg 
      ttggaggag ctgattttt cggcaaacg gtcggggat 
      gtggcaatt gacaggctg ttgaccgat ttggccaaa 
      gccacgcat taa
    mRNA sequence
    • >TC030676 RA
      tatacgaaa gacgtaaaa aaagcaatg ttcagtgac 
      aggtcgaaa gggtgaaca aagccagga cacgaccaa 
      tcacgagta agctccctc attacgagc gccaatgaa 
      acattttct actcgatcc agccaccac tgatcgccg 
      gccttttaa ccctctgga aaccggggg cgggttgga 
      aagttcagc ttgttttgc ggtcggcat tttactgca 
      tgtggcggc tcaaaagaa aatagctac tgttgaagt 
      tgcctccaa aagagtcgg atgtgattg tgtcctgac 
      accctttca tttttcggc gaaatatgg atgattcaa 
      tcccgtcga acaaaaccg agtctcttt gccgcgttt 
      gcggcgaca aagcttcag gaaaacact acggcgtgt 
      ccagttgcg acggctgtc ggggctttt tcaaacgca 
      gcatacgac gcaacttgg agtacgtgt gcaaggaaa 
      acggccgtt gcatcgtcg acgtcaccc gaagaaatc 
      aatgccaag cgtgtcgct tcaaaaaat gtcttcaag 
      tcaacatga aaagagacg cagtccagc atgagcgag 
      ccccacggt caacacaat caggccttc accagtacc 
      ccctcagtt tcggaagcc gcttgagga gtctccaca 
      cttccgtct tctcaactc ttcccctac acaccccaa 
      cccttgaca cccccgcaa ctctacctg gacattacc 
      tccaccaaa actatctct acccaggaa tgttggggt 
      cgttcccga aacctaatc tagtcccag gacccttag 
      cattctata acaaaccac ctcatccag caatgttaa 
      atctcgcgt cccgaacga gcctaaaag acgacgaag 
      tcacaagtt cggaagagg caaaagagc gggaaaaaa 
      gcccatctg aggaaaccc tggacgaga aaactaacc 
      tagagctac cactaatga ccgagtctt gcaaaccag 
      tcctaagac ccttggaca tcccctgcc tcagcctat 
      tcccggccg aaaacgtgt acgaatccg ccgctaaac 
      tcctctttc tcgccataa aatgggcca aaagcatcc 
      cctcattcc tgcaattgt cctaccgcg accagtcaa 
      tcctccttg aggagagct ggagcgagc tgttcgtcc 
      tgacagcgg cccagtggg ccttcccgg tcgatgaaa 
      cacttttag tcagcaatg ccattgctc caacgtccc 
      ggcacgcag cccttgagg aggatgcgc gccgtttga 
      gggagatta tcacaagat tgactcttt tgcgggtcg 
      accacaccg aacatgcgt gtcttaaag ctttggttc 
      tttttaagt cggaatgtc gcgggttgt gcgagccaa 
      gtcatgtcg agctattgc aagatcaga cgcatgtca 
      tgctgaatg agtactgca atcagaggc agaccaaag 
      gcaggttcg ggaagttgc tgcttaccc taccagcgg 
      ttcaggcgg ttacgagga gagggttgg aggagctga 
      tttttcggc aaacggtcg gggatgtgg caattgaca 
      ggctgttga ccgatttgg ccaaagcca cgcattaag 
      cgagatttt gaatcactt gtaactgtg ttaattgaa 
      taaattatt ggaaattat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY