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Gene information
General information
TC013168 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: 12808749..12811345
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
    TC013168
    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_09119

    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: 80.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 8 (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
    • >TC013168 RA
      MSLAAARPL VSVYNEKSE EVKGETVVL PAVFKAPIR 
      PDVVNFVHQ QLSMNHRQA YCVSDKAGH QTSAESWGT 
      GRAVARIPR VRGGGTHRS GQGAFGNMC RGGRMFAPT 
      KPWRRWHRR VNVNQRRYA LASAVAASG VPALVMSKG 
      HVIDQVPEL PLVVSDKVQ EMNKTKQAV QFLRRIKAW 
      ADIQKVYKS QRFRAGKGK MRNRRRIQR RGPLVVYHK 
      DQGLRRAFR NIPGIDLIS VEKLNLLKL APGGHVGRF 
      VIWTESAFQ RLDKLFGSW KTPSAEKKG YNLPQPKMA 
      NTDLARLLK ADEIKKVLR VPQKKVVRR VRRFNPLAN 
      TGAMLRLNP YAAVLKRQA ILSSQKRQA SRDEILAKK 
      RKITLPDTS RVVRSAKLQ AKRREAILK AKSGKTKKA 
      TKKAPAKK
    CDS sequence
    • >TC013168 RA
      atgtcgctg gccgccgcg cgcccctta gtgagcgtg 
      tacaatgag aaatccgag gaggtgaag ggcgagacc 
      gtggtcttg ccggccgtc ttcaaggcc cccattagg 
      cccgatgtc gtcaacttc gtgcaccaa cagctctcc 
      atgaaccat cgccaggcc tactgcgtt agtgacaaa 
      gccggccac cagacctct gccgagtcc tggggcact 
      ggccgtgcc gtggcgcgt attccccgt gtccggggc 
      ggcggcacc caccgctcg ggacagggt gcgttcggg 
      aacatgtgt cgcgggggg cgcatgttc gcaccgacc 
      aaaccatgg cgtcgctgg cacagacgc gtcaatgtt 
      aaccaacgt cggtatgct ctggcttcg gctgtggcc 
      gccagtggg gtcccagct ttggtcatg agcaagggg 
      catgtcatc gatcaggtg ccagagctg ccgctggtg 
      gtctccgat aaggtccaa gagatgaac aagaccaag 
      caagccgtg cagtttctg agacgcatc aaggcctgg 
      gctgatatc caaaaggtc tacaagagc cagcgcttc 
      cgtgctgga aagggtaaa atgcgcaac aggcgccgc 
      atccaacgc cgaggccct ttggtggtt taccacaag 
      gatcagggc ttgcgccgc gccttccgt aacatcccc 
      ggaattgac ttaatcagc gttgaaaag ctcaacctt 
      ttgaaactg gctccgggt ggtcacgtt ggccgtttc 
      gtcatctgg accgagtcg gccttccag agactggac 
      aaactcttc ggaagctgg aaaactcca tcagctgag 
      aagaagggc tacaacttg ccccaaccc aaaatggct 
      aataccgat ctggctcgt ttgttgaag gctgatgaa 
      atcaagaaa gttttgcgt gtgccacag aagaaggtt 
      gtacgtcgc gtgcgtcgt ttcaacccg ttggccaac 
      actggggct atgttgcgt ctcaatcct tacgctgca 
      gtattgaaa cgccaagcg attttgtca tctcaaaag 
      cgtcaagct agtagggat gaaattttg gccaagaaa 
      aggaaaata actcttccg gatacgtca cgtgtggtc 
      agatccgcc aaattgcaa gctaaaaga agagaagct 
      attctaaag gccaaatct ggcaaaacg aagaaagca 
      acaaagaaa gctcccgct aaaaaataa
    mRNA sequence
    • >TC013168 RA
      aagagaaag ttgctggga gggtaccca tttttgcgt 
      tttcaaatt cagcgcctg actgtaaca ccgacaatt 
      ctcgctttt accgaccga ggcaaggcc acttccttt 
      tatatggcg gacattgtg ttcgcttga tgtgcgaga 
      caagtgaaa agtagaatt aagttttac aaaaaatgt 
      cgctggccg ccgcgcgcc ccttagtga gcgtgtaca 
      atgagaaat ccgaggagg tgaagggcg agaccgtgg 
      tcttgccgg ccgtcttca aggccccca ttaggcccg 
      atgtcgtca acttcgtgc accaacagc tctccatga 
      accatcgcc aggcctact gcgttagtg acaaagccg 
      gccaccaga cctctgccg agtcctggg gcactggcc 
      gtgccgtgg cgcgtattc cccgtgtcc ggggcggcg 
      gcacccacc gctcgggac agggtgcgt tcgggaaca 
      tgtgtcgcg gggggcgca tgttcgcac cgaccaaac 
      catggcgtc gctggcaca gacgcgtca atgttaacc 
      aacgtcggt atgctctgg cttcggctg tggccgcca 
      gtggggtcc cagctttgg tcatgagca aggggcatg 
      tcatcgatc aggtgccag agctgccgc tggtggtct 
      ccgataagg tccaagaga tgaacaaga ccaagcaag 
      ccgtgcagt ttctgagac gcatcaagg cctgggctg 
      atatccaaa aggtctaca agagccagc gcttccgtg 
      ctggaaagg gtaaaatgc gcaacaggc gccgcatcc 
      aacgccgag gccctttgg tggtttacc acaaggatc 
      agggcttgc gccgcgcct tccgtaaca tccccggaa 
      ttgacttaa tcagcgttg aaaagctca accttttga 
      aactggctc cgggtggtc acgttggcc gtttcgtca 
      tctggaccg agtcggcct tccagagac tggacaaac 
      tcttcggaa gctggaaaa ctccatcag ctgagaaga 
      agggctaca acttgcccc aacccaaaa tggctaata 
      ccgatctgg ctcgtttgt tgaaggctg atgaaatca 
      agaaagttt tgcgtgtgc cacagaaga aggttgtac 
      gtcgcgtgc gtcgtttca acccgttgg ccaacactg 
      gggctatgt tgcgtctca atccttacg ctgcagtat 
      tgaaacgcc aagcgattt tgtcatctc aaaagcgtc 
      aagctagta gggatgaaa ttttggcca agaaaagga 
      aaataactc ttccggata cgtcacgtg tggtcagat 
      ccgccaaat tgcaagcta aaagaagag aagctattc 
      taaaggcca aatctggca aaacgaaga aagcaacaa 
      agaaagctc ccgctaaaa aataaagag attaggata 
      gttcttgta taattttat attgggact accataatc 
      ttggtttat ttgtaatta aaaataaaa aagttgtgg 
      atta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY