Status
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Gene information
General information
TC006792 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_007423.3: 14332910..14334203
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
    TC006792
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_07585

    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: 0.0% (includes death as pupa, adult)

    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
    • >TC006792 RA
      MSQEKRPQF GNRYLTDDD NVFQHNAWD DVEWDEEQE 
      NQARDKVRV NGEVKFPDS VIEKYENEA DKYWDAFYD 
      IHTNRFFKD RHWLFTEFP ELATETGTI FEIGCGVGN 
      TIFPILQTS KNNNLRVYG GDFSPKAIE ILQEAPEFD 
      SKRCKVFVL DASQDKWDV PFDENSIDI IVLIFVLSA 
      INPSKFVNV VKNIHKYLK TGGLVLFRD YGRYDMAQL 
      RFKPGRSLG ENFYVRGDG TRVYFFTQD EVRKLFEEF 
      GFKEEENRA DRRLQVNRG RLLKMYRVW IQAKYRKT
    CDS sequence
    • >TC006792 RA
      atgtcacaa gaaaagagg ccccaattc ggcaacaga 
      tacctcacc gacgatgac aatgttttt caacacaat 
      gcgtgggat gacgtcgaa tgggacgaa gaacaagaa 
      aatcaagcg agggataaa gtgagagta aatggcgag 
      gttaagttt cccgatagc gtaatagaa aaatacgaa 
      aatgaagct gataaatac tgggacgct ttttacgac 
      atacacaca aataggttt ttcaaagac cggcattgg 
      ttatttact gaattcccc gaactggcg accgaaact 
      ggaacaata tttgaaatt ggttgtggg gttggaaat 
      acaatattt ccaatctta cagacgtcc aaaaataat 
      aatttgcgg gtttacggg ggtgatttt tcaccaaaa 
      gccattgaa attttacaa gaagcgcca gaatttgac 
      tcaaaacgc tgcaaagtt ttcgtcttg gatgcctcg 
      caagacaag tgggacgta ccgtttgac gaaaacagt 
      attgacata atcgtgtta atttttgtc ttatcggca 
      atcaatccg tcgaaattt gtcaatgtg gtcaaaaac 
      atacataag tatttaaaa actgggggc ttggtttta 
      tttcgcgat tatggacgt tacgatatg gcacagtta 
      cgtttcaaa cccgggcgg tctttaggg gaaaatttt 
      tacgtacga ggtgatggc accagagtg tattttttc 
      acacaagat gaagtgcga aaattattt gaggagttt 
      ggtttcaag gaagaggaa aatcgggcc gacaggcgg 
      ttacaagtg aacagaggt cggctgttg aaaatgtat 
      agagtttgg attcaggca aaatatcga aaaacgtga
    mRNA sequence
    • >TC006792 RA
      ccagccaaa aaaatccct atcgccgtg acaattaac 
      ctcaacatg tcacaagaa aagaggccc caattcggc 
      aacagatac ctcaccgac gatgacaat gtttttcaa 
      cacaatgcg tgggatgac gtcgaatgg gacgaagaa 
      caagaaaat caagcgagg gataaagtg agagtaaat 
      ggcgaggtt aagtttccc gatagcgta atagaaaaa 
      tacgaaaat gaagctgat aaatactgg gacgctttt 
      tacgacata cacacaaat aggtttttc aaagaccgg 
      cattggtta tttactgaa ttccccgaa ctggcgacc 
      gaaactgga acaatattt gaaattggt tgtggggtt 
      ggaaataca atatttcca atcttacag acgtccaaa 
      aataataat ttgcgggtt tacgggggt gatttttca 
      ccaaaagcc attgaaatt ttacaagaa gcgccagaa 
      tttgactca aaacgctgc aaagttttc gtcttggat 
      gcctcgcaa gacaagtgg gacgtaccg tttgacgaa 
      aacagtatt gacataatc gtgttaatt tttgtctta 
      tcggcaatc aatccgtcg aaatttgtc aatgtggtc 
      aaaaacata cataagtat ttaaaaact gggggcttg 
      gttttattt cgcgattat ggacgttac gatatggca 
      cagttacgt ttcaaaccc gggcggtct ttaggggaa 
      aatttttac gtacgaggt gatggcacc agagtgtat 
      tttttcaca caagatgaa gtgcgaaaa ttatttgag 
      gagtttggt ttcaaggaa gaggaaaat cgggccgac 
      aggcggtta caagtgaac agaggtcgg ctgttgaaa 
      atgtataga gtttggatt caggcaaaa tatcgaaaa 
      acgtgaaat tgacaaata tattaattt tttgtaaat 
      ttttaaaaa ttacataat tacattatg tctatagat 
      taaatatgt ataaggaat ccttttgta ttaaacgat 
      aaaataaaa aacctacat aatt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY