Status
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Gene information
General information
TC030468 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: 3349368..3365854
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
    TC030468
    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
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_09982

    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
    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
    • >TC030468 RA
      MLSAGLGYG VSGPVTGTT PPYSPPPPA RHSPLPSFG 
      FTQEQVACV CEVLQQAGN VERLGRFLW SLPACDKLH 
      NNESVLKAK AIVAFHRGN FKELYKILE SHQFSPHNH 
      AKLQALWLK AHYIEAERL RGRPLGAVG KYRVRRKFP 
      LPRTIWDGE ETSYCFKEK SRSVLRDWY SHNPYPSPR 
      EKRELADAT GLTTTQVSN WFKNRRQRD RAAEHKDSG 
      QSNSDKPHL DSSGSDSES EHKLSTYTP SGAVGPPQL 
      APYGGLGAP SLGQPLYQA PGGLLHDYQ AL
    CDS sequence
    • >TC030468 RA
      atgctgtcg gcggggctt gggtacggt gtctccggt 
      cccgtgacg ggcaccacg cccccctac agcccgcca 
      ccccccgct agacacagc cccttacca agtttcgga 
      ttcacacag gagcaagtc gcgtgcgtg tgcgaagta 
      ttacaacaa gctggtaac gtcgaacgc ttaggtaga 
      ttcttatgg tcgttaccg gcttgcgac aaactacac 
      aacaacgag tccgtacta aaggccaaa gccatagtg 
      gccttccat cgaggcaac ttcaaggag ctttacaaa 
      atattggaa agccaccag tttagtccg cacaatcat 
      gccaaactg caagccctg tggctcaaa gcgcactac 
      atcgaagca gaaagactc agaggcaga ccgttgggc 
      gctgtcggc aaataccgc gtgagacga aaattccct 
      ctacctcgg accatttgg gacggtgaa gaaacaagt 
      tactgtttc aaggagaaa tcccggagt gttttacgc 
      gattggtac tcgcacaat ccctatcct agtcctcgc 
      gaaaaaagg gaactggcg gatgccacc ggtcttaca 
      accacccag gtctccaac tggttcaaa aatcgaaga 
      cagagggac agagcagcc gaacataaa gacagcggc 
      cagtccaac tccgacaag ccccatctc gactcgagc 
      ggatcggac agcgagtcc gagcacaag ctctcgacg 
      tacacccct tcgggggct gtggggccc ccgcagctc 
      gcgccctac ggcggactg ggggcgccg tcgctcgga 
      cagcccctc taccaggcc ccggggggc ctcctgcac 
      gactaccag gccttgtga
    mRNA sequence
    • >TC030468 RA
      tccatcaaa gcccgcctc tcgagcttt caaatatag 
      gaaacggat ccgacttgg acagttggc ttgagatcg 
      ttggaaagc tcgtttgtg ttaaagttt tggacgttt 
      tatggattt tggtcgtgt tgtagcgca cattccata 
      cattttgat cgcgctcat ttagttaat tacgtcaac 
      ggttaaatt tagatgttt gtgatgggt ttttggtga 
      tgtgagtgc agtgtgctc taaacttcc ggattatac 
      catttagtt cggagccca aacacgtgc cgctctttc 
      accatcgcc gaagccaga aaaaaaaac aacctcaag 
      acattttta tcaatgagt ctcatcatc ggcgacgtc 
      tgaacccaa cgatgaccg taaaatagt tcttttcag 
      cttgaagtt tgctctcag gacgagaga gagcgcaat 
      gctgtcggc ggggcttgg gtacggtgt ctccggtcc 
      cgtgacggg caccacgcc cccctacag cccgccacc 
      ccccgctag acacagccc cttaccaag tttcggatt 
      cacacagga gcaagtcgc gtgcgtgtg cgaagtatt 
      acaacaagc tggtaacgt cgaacgctt aggtagatt 
      cttatggtc gttaccggc ttgcgacaa actacacaa 
      caacgagtc cgtactaaa ggccaaagc catagtggc 
      cttccatcg aggcaactt caaggagct ttacaaaat 
      attggaaag ccaccagtt tagtccgca caatcatgc 
      caaactgca agccctgtg gctcaaagc gcactacat 
      cgaagcaga aagactcag aggcagacc gttgggcgc 
      tgtcggcaa ataccgcgt gagacgaaa attccctct 
      acctcggac catttggga cggtgaaga aacaagtta 
      ctgtttcaa ggagaaatc ccggagtgt tttacgcga 
      ttggtactc gcacaatcc ctatcctag tcctcgcga 
      aaaaaggga actggcgga tgccaccgg tcttacaac 
      cacccaggt ctccaactg gttcaaaaa tcgaagaca 
      gagggacag agcagccga acataaaga cagcggcca 
      gtccaactc cgacaagcc ccatctcga ctcgagcgg 
      atcggacag cgagtccga gcacaagct ctcgacgta 
      caccccttc gggggctgt ggggccccc gcagctcgc 
      gccctacgg cggactggg ggcgccgtc gctcggaca 
      gcccctcta ccaggcccc ggggggcct cctgcacga 
      ctaccaggc cttgtgaca gtggttagc cacgccgca 
      agatgccgc cagtaatct gtgaattgg tgatacggg 
      ggacgcccc caactgacc tttgttact actgtactt 
      atcgaattg tatttttgt tcataaagt tttaatgta 
      catagaaat ttattccct actctagga taagtgtat 
      gtattaggt agttagtcc atcactgcc tttcttttg 
      ccatctccg agcaataac ttatgctta ggtctcggt 
      gtacttttt tttgctgtg actgtactt aatcacccg 
      attttcggt caatcattt gtggcacaa agcaataaa 
      actatagct tttactata tttacggaa actactgct 
      ctttatttc aaaaaaata ctgaaattg gtttcatgc 
      cactttttt tgaaataaa tactgatct tacgttact 
      ctacatacc ttcaccata cgtacttat ataagtggt 
      taaaaagca cattatttt gtttatgtc cgaataatg 
      tttctgttg taactgaaa ataaatttg aataattac 
      c
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY