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Gene information
General information
TC013234 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: 11786112..11787249
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
    TC013234
    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_09109

    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 (11 dpi)
    Days post injection


    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
    • >TC013234 RA
      MNVLTSVRL GALTLKSAR TYAFKSDLK IKWVRPEKI 
      PCIKPEKSG DLEAMMKID LSQPQLPFR GSKELETAD 
      ETVKKLFSL EYAPRRKLT QVYGYEMKQ LVKRHEFDT 
      GSVEVQIAR WTAIIRAYQ DLMEKFPRN KVMKVVLKE 
      MIDRRKKKL KYLRRWDYK RFEWLLEAL KIVYKPPPD 
      HFHWITRKE SLRKLTNNY CEDIRQRRL DEYKQLLQN 
      EQPVFLQEK IRALEFIRN EQRECGVEV TVTDEEVEA 
      VRKQLKELE EQRKSEEE
    CDS sequence
    • >TC013234 RA
      atgaacgtg ctaacgtca gttcgtttg ggggccttg 
      actttaaag tcggcccgc acgtacgcc ttcaagagc 
      gatttaaaa atcaaatgg gtccgcccg gagaaaatc 
      ccgtgtatc aagccggag aaaagtggt gacctggaa 
      gcaatgatg aaaatcgac ttgtcacag ccccagctt 
      cccttccgt ggctccaaa gaattggaa acggccgac 
      gaaaccgtg aaaaaattg ttttcgtta gaatacgcc 
      cctcgcagg aaattgact caagtgtac ggctatgaa 
      atgaagcaa ctcgtgaag aggcacgag ttcgatacg 
      ggttctgtt gaagtgcaa atcgccaga tggacggcc 
      atcatcagg gcgtaccag gacttgatg gagaaattt 
      ccgaggaat aaggtcatg aaggttgtt ttaaaggag 
      atgatcgat aggaggaag aagaaattg aagtatttg 
      cgacggtgg gattacaag cggtttgag tggttgctg 
      gaagcgcta aaaattgtg tataagccg ccccctgat 
      cacttccat tggatcacc cggaaggag tcgttacgg 
      aagttgacg aataactac tgcgaggat attaggcaa 
      cggcggctt gacgagtac aagcagctg ttgcagaac 
      gaacagcct gtctttttg caggagaaa atcagggct 
      cttgagttt atcaggaac gagcaacgt gagtgtggg 
      gttgaagtc actgtcaca gacgaggag gttgaagca 
      gtgaggaag caactcaag gaattggag gagcaacgt 
      aagagtgaa gaagagtga
    mRNA sequence
    • >TC013234 RA
      ccccagttt aagacacac aattggcag aaaacgacc 
      catttatca gaaaaactt aacttggcg caaaaaccg 
      tctcgaatc aattttctt atcacgcaa ttttcacgt 
      cgtcaagtt ggtggttct tggagctac tccggagtt 
      actccagtg ccacataac cttagattt agttatcgt 
      taatgatag ccccctttt cgcgatgaa cgtgctaac 
      gtcagttcg tttgggggc cttgacttt aaagtcggc 
      ccgcacgta cgccttcaa gagcgattt aaaaatcaa 
      atgggtccg cccggagaa aatcccgtg tatcaagcc 
      ggagaaaag tggtgacct ggaagcaat gatgaaaat 
      cgacttgtc acagcccca gcttccctt ccgtggctc 
      caaagaatt ggaaacggc cgacgaaac cgtgaaaaa 
      attgttttc gttagaata cgcccctcg caggaaatt 
      gactcaagt gtacggcta tgaaatgaa gcaactcgt 
      gaagaggca cgagttcga tacgggttc tgttgaagt 
      gcaaatcgc cagatggac ggccatcat cagggcgta 
      ccaggactt gatggagaa atttccgag gaataaggt 
      catgaaggt tgttttaaa ggagatgat cgataggag 
      gaagaagaa attgaagta tttgcgacg gtgggatta 
      caagcggtt tgagtggtt gctggaagc gctaaaaat 
      tgtgtataa gccgccccc tgatcactt ccattggat 
      cacccggaa ggagtcgtt acggaagtt gacgaataa 
      ctactgcga ggatattag gcaacggcg gcttgacga 
      gtacaagca gctgttgca gaacgaaca gcctgtctt 
      tttgcagga gaaaatcag ggctcttga gtttatcag 
      gaacgagca acgtgagtg tggggttga agtcactgt 
      cacagacga ggaggttga agcagtgag gaagcaact 
      caaggaatt ggaggagca acgtaagag tgaagaaga 
      gtgaaacca gtgtttttt tcaaacatt ttttcgttt 
      tccgttaaa tacatgtat cacgtacac ataacgacg 
      aaatgcaac aataaaaat ctctaatct agaaacttg 
      acatacata cgagtgaaa atac
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY