Status
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Gene information
General information
TC001099 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_007417.3: 10915799..10917204
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
    TC001099
    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_09661

    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: 20.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    Adult morphology
    abdominal odoriferous glands potentiallycontent decreased - Number of animals showing the phenotype: 3 (13 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
    • >TC001099 RA
      MTKISEISR NSSASLSDD DEETRVRKF AKHMLKSSL 
      FIGTFLEKR LVEPLNSYR DVIKICDDE HDLIANLKA 
      VRKRCLKHF TKNVWIGIT EPKTIGAPA GYNLWVSLD 
      EEVFGSFWY KIKNVEFFH NEVRVKLEV VRPVREKTP 
      VHNITPTQI FEDVSQKNL GELGAKFQE FFKDQLRNL 
      FTETLTWPN IKQATIFMV LLLSTLITF LIHTIKYLL 
      DYLLKLLRE TQGLIRVCT PIIVNFMTL ISNTICGFY 
      SLLAVLWRN RSPPINQLH ISPYDVPYY RSNMRALPY 
      QAGDFQRYR KSRGSSVKI TPLD
    CDS sequence
    • >TC001099 RA
      atgacaaaa atcagtgaa atcagccga aattcgtct 
      gcaagcctt tccgacgat gacgaggag acaagagtg 
      cgcaaattt gcaaaacac atgctcaag agctcccta 
      tttatcggt acgtttctg gaaaaaagg ctggttgaa 
      cctttgaac tcgtaccgc gatgtaatt aaaatatgc 
      gacgatgaa cacgacctt attgcgaat ttaaaagca 
      gtgaggaag cgctgcttg aagcatttt accaaaaat 
      gtgtggatt ggtatcacg gagccgaaa acaatcggg 
      gccccggca ggttacaat ttgtgggtg agtctggac 
      gaagaggtt tttgggagt ttttggtac aaaatcaaa 
      aacgttgaa ttcttccac aatgaagtt agagtcaag 
      cttgaagtt gtgaggcca gtcagagag aagactcca 
      gttcataat ataactccc actcagatt tttgaagac 
      gtttctcag aagaatttg ggtgaattg ggtgcaaaa 
      tttcaggag tttttcaag gatcagttg aggaacttg 
      tttactgaa accttgact tggcccaac attaaacaa 
      gccaccata tttatggtt cttttgtta tcaacactg 
      atcactttc ttgatacac accatcaag taccttcta 
      gactatctc ctgaaactt ttgcgtgaa acgcaagga 
      cttatcagg gtttgcacc ccaattatt gtcaacttt 
      atgacttta atttcgaat accatttgt ggattttat 
      tctttattg gcggttttg tggcgaaat cggtcacca 
      ccaatcaat caattacac atatctccg tatgatgta 
      ccatattat agaagtaat atgagggca ttaccttac 
      caggcagga gactttcaa aggtatcgc aaatctcgc 
      ggatcttca gtcaagatc actccgttg gattaa
    mRNA sequence
    • >TC001099 RA
      tgggtcacg taacgtcaa aaaagtgac agttgttgg 
      taaataaaa tgttgcaaa taagtgtat ttttctttt 
      gatctgtta tgtttggac aactcagca cccaaacac 
      gtcaagacc ccagttgta aaaaatgac aaaaatcag 
      tgaaatcag ccgaaattc gtctgcaag cctttccga 
      cgatgacga ggagacaag agtgcgcaa atttgcaaa 
      acacatgct caagagctc cctatttat cggtacgtt 
      tctggaaaa aaggctggt tgaaccttt gaactcgta 
      ccgcgatgt aattaaaat atgcgacga tgaacacga 
      ccttattgc gaatttaaa agcagtgag gaagcgctg 
      cttgaagca ttttaccaa aaatgtgtg gattggtat 
      cacggagcc gaaaacaat cggggcccc ggcaggtta 
      caatttgtg ggtgagtct ggacgaaga ggtttttgg 
      gagtttttg gtacaaaat caaaaacgt tgaattctt 
      ccacaatga agttagagt caagcttga agttgtgag 
      gccagtcag agagaagac tccagttca taatataac 
      tcccactca gatttttga agacgtttc tcagaagaa 
      tttgggtga attgggtgc aaaatttca ggagttttt 
      caaggatca gttgaggaa cttgtttac tgaaacctt 
      gacttggcc caacattaa acaagccac catatttat 
      ggttctttt gttatcaac actgatcac tttcttgat 
      acacaccat caagtacct tctagacta tctcctgaa 
      acttttgcg tgaaacgca aggacttat cagggtttg 
      caccccaat tattgtcaa ctttatgac tttaatttc 
      gaataccat ttgtggatt ttattcttt attggcggt 
      tttgtggcg aaatcggtc accaccaat caatcaatt 
      acacatatc tccgtatga tgtaccata ttatagaag 
      taatatgag ggcattacc ttaccaggc aggagactt 
      tcaaaggta tcgcaaatc tcgcggatc ttcagtcaa 
      gatcactcc gttggatta agtttcttt gcattatat 
      aattctgtt tgcattttt aatcacatc gctgcaaag 
      tggggcact aggcaaagc tactttatt gtagtcgac 
      tcacaatgt aaataattt gtgtaatat tgcttttat 
      ctgggctca ggaatgttg acattggga cttgtacag 
      ataaaaact agatgcgtt ttgtggtca aaaaactat 
      gtattttat tgtagactt aataacgaa atatttata 
      agtgaaaca actcgtatc tatttttat aattgttga 
      aaaatacaa atgttaaaa aaat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY