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Gene information
General information
TC009068 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_007422.5: 7413247..7414994
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
    TC009068
    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
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    Name
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    Email
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    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_04586

    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 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: % (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
    • >TC009068 RA
      MTEIKKRTR SVNFTLDEK VLLMTIIKD KYKDIVECK 
      KTDSNTWTE KNAAWDEIT EEFNAQSLS QTFRSKESL 
      KKCYDNRKK EMRRLAAQN RQEFITGGG TGQQLNDPC 
      LEIIMDITN GKSVNDVDG EATIISDQE ENEETYFTY 
      GEVNKKRKE HSDFEDEEA IEELLSENF HDKPSTSEH 
      SQVQAEDST NYKLTKLKL SNAKLRGKV WYDRRRPKV 
      VEPVRTKYV SKQYSEVAS LKKQCLEFE LSSAKKKQE 
      RDEKEFESR MEEFKLRKK SLELDIQLK EFFLKKLQF 
      SATTDCQ
    CDS sequence
    • >TC009068 RA
      atgactgaa atcaaaaaa aggaccaga agtgttaat 
      tttacttta gatgaaaaa gtcttgtta atgactatt 
      ataaaagac aaatataag gacattgtt gaatgtaag 
      aaaacagac agtaatact tggaccgaa aaaaatgct 
      gcatgggat gaaatcact gaagagttt aatgctcag 
      tcgctcagt caaaccttt cgatcaaaa gaatcgtta 
      aaaaaatgt tatgataac agaaaaaaa gaaatgcga 
      agactagcg gcgcaaaat cgccaggaa tttataact 
      ggaggaggt actggccaa caactcaac gatccttgt 
      ttggaaatt ataatggat atcacaaat ggaaaatct 
      gtaaatgat gtagacgga gaggcaacc ataatttca 
      gatcaagaa gaaaacgaa gaaacttat tttacctac 
      ggcgaagtc aataaaaaa aggaaagaa cattctgat 
      ttcgaagac gaagaagcg attgaagaa ttattgtcc 
      gagaatttc catgataaa ccatctacg tcagagcac 
      tcacaagtt caagctgaa gactcgaca aactataag 
      ctaacaaag ttaaaactg tctaatgca aaattacgc 
      ggaaaagta tggtacgat agaagacgg ccaaaagtt 
      gtggaacca gtccgcacc aagtacgtt tcaaaacaa 
      tattccgaa gtagcaagt ttaaagaag caatgttta 
      gaattcgaa ttatcttct gcgaagaaa aaacaagag 
      agggatgag aaagaattc gagtcaagg atggaagaa 
      tttaaattg aggaagaaa tcgttggaa ttagacata 
      caattaaaa gagttcttt ttaaaaaaa cttcaattc 
      agtgcaact acggattgt cagtag
    mRNA sequence
    • >TC009068 RA
      acgaatatt acgatgaat tctcttttg gggatgaat 
      ttggggtat gactgaaat caaaaaaag gaccagaag 
      tgttaattt tactttaga tgaaaaagt cttgttaat 
      gactattat aaaagacaa atataagga cattgttga 
      atgtaagaa aacagacag taatacttg gaccgaaaa 
      aaatgctgc atgggatga aatcactga agagtttaa 
      tgctcagtc gctcagtca aacctttcg atcaaaaga 
      atcgttaaa aaaatgtta tgataacag aaaaaaaga 
      aatgcgaag actagcggc gcaaaatcg ccaggaatt 
      tataactgg aggaggtac tggccaaca actcaacga 
      tccttgttt ggaaattat aatggatat cacaaatgg 
      aaaatctgt aaatgatgt agacggaga ggcaaccat 
      aatttcaga tcaagaaga aaacgaaga aacttattt 
      tacctacgg cgaagtcaa taaaaaaag gaaagaaca 
      ttctgattt cgaagacga agaagcgat tgaagaatt 
      attgtccga gaatttcca tgataaacc atctacgtc 
      agagcactc acaagttca agctgaaga ctcgacaaa 
      ctataagct aacaaagtt aaaactgtc taatgcaaa 
      attacgcgg aaaagtatg gtacgatag aagacggcc 
      aaaagttgt ggaaccagt ccgcaccaa gtacgtttc 
      aaaacaata ttccgaagt agcaagttt aaagaagca 
      atgtttaga attcgaatt atcttctgc gaagaaaaa 
      acaagagag ggatgagaa agaattcga gtcaaggat 
      ggaagaatt taaattgag gaagaaatc gttggaatt 
      agacataca attaaaaga gttcttttt aaaaaaact 
      tcaattcag tgcaactac ggattgtca gtaggacgt 
      ttttctagt acattcaga aatctggct tacgtattt 
      aatactgta acgtattta taaaaaaaa ctataataa 
      aaacgatta aaaaag
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY