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Gene information
General information
TC002510 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_007418.3: 26264121..26271658
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
    TC002510
    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
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    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_07081

    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: 40.0% (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 lethality - Number of animals showing the phenotype: 2 (9 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
    • >TC002510 RA
      MEYAYIDET LANIHLNKQ QQNRRERNG 
      NLPKVSSTT TVFQLKQES VKRTGSFVV 
      GQKLRESKW FTHAEMSVF CAVVESGFI 
      VEQKENDAS KYGVAIWAP NYEKSKNPE 
      YLTIYTISE TKGKFKVLP CKLVEFWPE 
      GTCVKINNK CDKTETPLP EDTVRNQIL 
      AAENSKRKW HNTEHFAYY CRYGPVATN 
      VRMRKITDQ LRLNTGGFF LKIRSLTAK
    CDS sequence
    • >TC002510 RA
      atggaatat gcatatatc gacgaaacc ctcgccaac 
      atccacctc aacaagcag cagcagaac cgaagggaa 
      cgcaacggc aacctcccg aaagtgagc agcacaacc 
      acggtgttc cagctcaaa caggaaagc gtcaaaagg 
      accggaagc ttcgtcgtc ggccaaaag ctccgcgag 
      tccaagtgg ttcacacac gcggaaatg agcgttttt 
      tgcgccgtg gtcgaatcg gggttcatc gtcgaacag 
      aaggaaaac gacgcttcg aagtacggg gtggcgatt 
      tgggcgccc aactacgaa aagagcaaa aatccggaa 
      tatctaacg atctacaca atcagcgaa accaaaggt 
      aaattcaaa gtcctgccc tgcaaattg gtcgagttc 
      tggcccgag ggcacttgt gtcaaaatc aacaataaa 
      tgtgacaag acggagacg ccactaccg gaagacacc 
      gtccggaat cagattctc gcggccgag aattcgaaa 
      cggaagtgg cacaatacc gaacatttc gcctattat 
      tgtcggtac ggccctgtc gcgaccaac gtcagaatg 
      cgaaagatt acggatcaa ctgcgacta aacaccggc 
      gggttcttc ctgaaaatt cgaagtctg acagctaaa 
      taa
    mRNA sequence
    • >TC002510 RA
      agcaaaaat cgcgcgctc tttcattgt caactcatt 
      tgttgttgt gaacattca aagttcttc gctttaatt 
      ccataaaga gaaagtttg aagtggtct ctatacgtt 
      gcttctcgc acgtactac gttcatcat ggaatatgc 
      atatatcga cgaaaccct cgccaacat ccacctcaa 
      caagcagca gcagaaccg aagggaacg caacggcaa 
      cctcccgaa agtgagcag cacaaccac ggtgttcca 
      gctcaaaca ggaaagcgt caaaaggac cggaagctt 
      cgtcgtcgg ccaaaagct ccgcgagtc caagtggtt 
      cacacacgc ggaaatgag cgttttttg cgccgtggt 
      cgaatcggg gttcatcgt cgaacagaa ggaaaacga 
      cgcttcgaa gtacggggt ggcgatttg ggcgcccaa 
      ctacgaaaa gagcaaaaa tccggaata tctaacgat 
      ctacacaat cagcgaaac caaaggtaa attcaaagt 
      cctgccctg caaattggt cgagttctg gcccgaggg 
      cacttgtgt caaaatcaa caataaatg tgacaagac 
      ggagacgcc actaccgga agacaccgt ccggaatca 
      gattctcgc ggccgagaa ttcgaaacg gaagtggca 
      caataccga acatttcgc ctattattg tcggtacgg 
      ccctgtcgc gaccaacgt cagaatgcg aaagattac 
      ggatcaact gcgactaaa caccggcgg gttcttcct 
      gaaaattcg aagtctgac agctaaata atcccttag 
      gttacgtga ccaagacaa gattgtata aaacttagt 
      atta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY