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Gene information
General information
TC008301 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_007419.2: 8127968..8129238
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
    TC008301
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01334

    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)

    eclosion not fulfilled (with pupal and adult features) - 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: < 50
    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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008301 RA
      MAATKFLNL PDGSKMPVL GLGTWQAKD KGQLEAALN 
      TALELGYRH IDTAYIYEN EKIIGDVLK TWLSSGKLK 
      REDLFITTK LPMFGMNPD RVEYFLKKS LENLQMDYV 
      DLYLIHFPI GFKFDMSTG RPVVNDKRQ LVPEGKTDH 
      VAIWKKMEE QVDAGRIKT IGLSNYNIS QTETILKSA 
      RIKPANLQV EMHVYLQQR DLVNFCHKN GITVVAFSP 
      LGAPSYNKV LQAMGRESK ILPDILGDS VVNKIANKH 
      SKTPAQIVL RFLIQSGVA AIPKSVTPK RIQENINVF 
      DFSLDDNEF KELSSLEAG EKGRVHDFN MGFDLKDHP 
      DFPI
    CDS sequence
    • >TC008301 RA
      atggcggcg acaaagttt ctaaatctg ccggatggc 
      tcgaagatg ccagtcctt ggactagga acgtggcag 
      gcaaaagac aaaggccaa ctcgaagcc gcgttaaac 
      acggcactt gaactgggc taccgccac atcgacact 
      gcctatatt tacgaaaat gaaaaaatc ataggcgat 
      gttttgaaa acctggctc agttctggc aaactgaaa 
      cgggaagat cttttcatt acaacaaaa cttcctatg 
      tttggtatg aatccggac cgggttgag tatttcctg 
      aaaaaatca ctggaaaat ttgcaaatg gattatgtc 
      gatttgtat ttaatccat tttccaatt ggattcaaa 
      tttgatatg agtacggga cgaccggtt gttaacgac 
      aaacgacaa ttagtacca gaaggcaaa acagaccat 
      gtggccatt tggaagaaa atggaagaa caagtcgac 
      gccggtcgc atcaaaacc atcggtctt tccaattac 
      aacatttca caaactgag acaattcta aaatctgct 
      agaataaaa cccgcaaat ttacaagtc gaaatgcac 
      gtttacttg caacaaagg gatcttgtt aatttttgc 
      cacaaaaat ggaattact gtagtggcc ttctcgcca 
      ctaggagcc cccagctat aacaaagtt ttacaagca 
      atgggcaga gaatccaaa atattgccc gacatactt 
      ggagattca gttgttaat aaaatagcc aacaaacac 
      tcaaaaaca ccggctcaa attgttttg agatttttg 
      atacaaagc ggagtcgca gccatacct aaaagtgtt 
      actccgaaa cggattcaa gaaaatata aacgtgttc 
      gactttagc ctcgatgat aatgaattt aaagagctc 
      tccagtttg gaagccggc gaaaagggc agagtgcat 
      gattttaat atgggattt gatctgaag gatcaccca 
      gattttcca atttag
    mRNA sequence
    • >TC008301 RA
      aaacagtag cgtgatatt ctccagtta gacacaaat 
      tatttatta tttttgtta aaatggcgg cgacaaagt 
      ttctaaatc tgccggatg gctcgaaga tgccagtcc 
      ttggactag gaacgtggc aggcaaaag acaaaggcc 
      aactcgaag ccgcgttaa acacggcac ttgaactgg 
      gctaccgcc acatcgaca ctgcctata tttacgaaa 
      atgaaaaaa tcataggcg atgttttga aaacctggc 
      tcagttctg gcaaactga aacgggaag atcttttca 
      ttacaacaa aacttccta tgtttggta tgaatccgg 
      accgggttg agtatttcc tgaaaaaat cactggaaa 
      atttgcaaa tggattatg tcgatttgt atttaatcc 
      attttccaa ttggattca aatttgata tgagtacgg 
      gacgaccgg ttgttaacg acaaacgac aattagtac 
      cagaaggca aaacagacc atgtggcca tttggaaga 
      aaatggaag aacaagtcg acgccggtc gcatcaaaa 
      ccatcggtc tttccaatt acaacattt cacaaactg 
      agacaattc taaaatctg ctagaataa aacccgcaa 
      atttacaag tcgaaatgc acgtttact tgcaacaaa 
      gggatcttg ttaattttt gccacaaaa atggaatta 
      ctgtagtgg ccttctcgc cactaggag cccccagct 
      ataacaaag ttttacaag caatgggca gagaatcca 
      aaatattgc ccgacatac ttggagatt cagttgtta 
      ataaaatag ccaacaaac actcaaaaa caccggctc 
      aaattgttt tgagatttt tgatacaaa gcggagtcg 
      cagccatac ctaaaagtg ttactccga aacggattc 
      aagaaaata taaacgtgt tcgacttta gcctcgatg 
      ataatgaat ttaaagagc tctccagtt tggaagccg 
      gcgaaaagg gcagagtgc atgatttta atatgggat 
      ttgatctga aggatcacc cagattttc caatttagc 
      caaaaattg tgtatctat gaggtgaat aaaattctt 
      gcactgca
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY