Status
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Gene information
General information
TC015040 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: 4274362..4275924
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
    TC015040
    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_02381

    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: 30.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    adult lethality immediately after eclosion - Number of animals showing the phenotype: 1 (3 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC015040 RA
      MEPWMKISL HLCVFGFLK EIRPSEPFI YDYLIGPWR 
      NLTEDEVTK QVYPVGTYA NMILLVLVF LITDICRYK 
      PLIVVLGLS GIAVWAMLI WTTSLFSLQ VLEVIYGMF 
      CASEVAYYT YIYAKVDKE HYQKVTSHT RGAILAGRA 
      ISGISSQVL VSTKWMDFK ELNYITFAA VSLATLWAL 
      FLPSVDRSL YFHSDAQNR KFSAKVGSA FTLMRSHFM 
      DAFTNSHVV KWSAWWALS TCGYVQIET YMQPLYSAV 
      QHSNETAYN GAVEAILTL SGFLVALLA GYLKFNWEV 
      KGELTLGVF SLVQGVLMV VISQTDYIF LCYAFYIVF 
      GILYHFMVT IASAQIAKV IDEDSYGLI FGLNTFFAL 
      VCNSILTVL VATEGVGFA LDARGQYVV YGGYHLAIA 
      LVFVIMGLR TCFGSRGVG ESCDNIVDK APDA
    CDS sequence
    • >TC015040 RA
      atggagcca tggatgaaa atctctctc catttgtgc 
      gtttttggt ttcttgaaa gaaatccgc ccttcggag 
      cccttcatt tacgactac ttgatcggc ccttggcgc 
      aacctcact gaagatgaa gtgacgaaa caggtctat 
      cctgtggga acctacgcc aacatgatc ctcctagtc 
      ctggtgttc ctcatcact gatatctgc cgctacaag 
      ccactgatt gtagtcttg ggcctttcg ggaatcgcc 
      gtttgggca atgcttatc tggactaca agtcttttc 
      agtctacaa gtccttgaa gtaatttat ggcatgttt 
      tgtgcctcc gaagtggca tactatact tatatttat 
      gcaaaagtc gacaaagag cactaccag aaagtgacg 
      tcacacacc agaggcgcc atcttagcc ggacgcgcc 
      atttcaggg atcagttcc caggtttta gtctcgaca 
      aaatggatg gacttcaaa gaattgaac tacatcacg 
      tttgctgcg gtgagtttg gcaaccctg tgggctctg 
      tttctcccc agcgttgac cgaagtctg tactttcac 
      tccgacgct cagaatcgg aagttttcg gcaaaagtc 
      ggctcggct tttacccta atgcggagc cattttatg 
      gacgctttt accaacagt cacgtggtt aaatggtcg 
      gcttggtgg gcactttcc acctgtggt tacgtgcaa 
      attgaaacc tacatgcaa ccactttac tccgccgtg 
      caacattcc aacgaaacg gcctacaat ggcgccgtg 
      gaggccatt ttgacgctg tccggcttc ctggtcgcg 
      cttctggcg ggctatttg aaatttaat tgggaagtt 
      aaaggagag ttaactctc ggtgtattt tccttggtt 
      cagggcgtt ctaatggtt gtgatttcg caaactgat 
      tacattttt ttgtgttat gcgttttat atcgtgttc 
      gggattttg tatcatttt atggtgacg atagcaagt 
      gcgcaaatt gctaaagtt atcgatgag gatagttat 
      ggtttgatt tttgggcta aatacgttt tttgctcta 
      gtttgtaat tcgattttg acggtgttg gtggccact 
      gaaggggtc gggtttgcg ttggatgcg agggggcag 
      tatgtggtg tatgggggc tatcatttg gccattgcg 
      ctcgttttt gtgatcatg gggctaagg acgtgtttt 
      gggagtcgc ggggtgggg gaaagttgt gataatatt 
      gtcgataaa gcgccagac gcttaa
    mRNA sequence
    • >TC015040 RA
      tctgtgcac aataataat tattatcac tccatacaa 
      ttgtgagta tgtatttaa aaaaaaaca tcctctcga 
      gattatttt ttctaaata ggaataatt tttttcggg 
      tttgccaaa cccctattt aggcctcca tttcgtgcc 
      aactctcca gtgacaaaa tggagccat ggatgaaaa 
      tctctctcc atttgtgcg tttttggtt tcttgaaag 
      aaatccgcc cttcggagc ccttcattt acgactact 
      tgatcggcc cttggcgca acctcactg aagatgaag 
      tgacgaaac aggtctatc ctgtgggaa cctacgcca 
      acatgatcc tcctagtcc tggtgttcc tcatcactg 
      atatctgcc gctacaagc cactgattg tagtcttgg 
      gcctttcgg gaatcgccg tttgggcaa tgcttatct 
      ggactacaa gtcttttca gtctacaag tccttgaag 
      taatttatg gcatgtttt gtgcctccg aagtggcat 
      actatactt atatttatg caaaagtcg acaaagagc 
      actaccaga aagtgacgt cacacacca gaggcgcca 
      tcttagccg gacgcgcca tttcaggga tcagttccc 
      aggttttag tctcgacaa aatggatgg acttcaaag 
      aattgaact acatcacgt ttgctgcgg tgagtttgg 
      caaccctgt gggctctgt ttctcccca gcgttgacc 
      gaagtctgt actttcact ccgacgctc agaatcgga 
      agttttcgg caaaagtcg gctcggctt ttaccctaa 
      tgcggagcc attttatgg acgctttta ccaacagtc 
      acgtggtta aatggtcgg cttggtggg cactttcca 
      cctgtggtt acgtgcaaa ttgaaacct acatgcaac 
      cactttact ccgccgtgc aacattcca acgaaacgg 
      cctacaatg gcgccgtgg aggccattt tgacgctgt 
      ccggcttcc tggtcgcgc ttctggcgg gctatttga 
      aatttaatt gggaagtta aaggagagt taactctcg 
      gtgtatttt ccttggttc agggcgttc taatggttg 
      tgatttcgc aaactgatt acatttttt tgtgttatg 
      cgttttata tcgtgttcg ggattttgt atcatttta 
      tggtgacga tagcaagtg cgcaaattg ctaaagtta 
      tcgatgagg atagttatg gtttgattt ttgggctaa 
      atacgtttt ttgctctag tttgtaatt cgattttga 
      cggtgttgg tggccactg aaggggtcg ggtttgcgt 
      tggatgcga gggggcagt atgtggtgt atgggggct 
      atcatttgg ccattgcgc tcgtttttg tgatcatgg 
      ggctaagga cgtgttttg ggagtcgcg gggtggggg 
      aaagttgtg ataatattg tcgataaag cgccagacg 
      cttaataat taataaagc atataaaaa tta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY