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Gene information
General information
TC005759 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: 8203351..8204849
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
    TC005759
    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_09356

    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
    • >TC005759 RA
      MPGPKACKK TRKEWHLTH WSKLQFPVI LLQIDDWFK 
      CLDGLMEIL ISKKVVLAL IILAAISFY ISYTFNTCL 
      VSSIAKALP KWRHHPVVP NDTPIIHYH TSVRVVPLL 
      ESNESDISP KYKFFREQG LRPMRQLPS ALIIGVKKG 
      GTRALLEFI RIHPDVRAA GSEVHFFDK NYPRGFQWY 
      RQRMPPTLE GQLTIEKTP SYFITKEAP RRVQHMNPS 
      TKLLVVVRD PVTRAISDY TQAISKKPD MKPFDQLVF 
      INSTIGCIV DTSWGPVKL GLYSRYLSR WLKYFPLSQ 
      FLFISGERL VVDPAIELK RVQDFLGLK RVVSERHFY 
      FNSTKGFPC LFKSEGHST PHCLGKTKG RNHPYIDPI 
      VIQRLRDFY RPFNNRFYQ MTGINFGWA
    CDS sequence
    • >TC005759 RA
      atgcctggc ccgaaagcg tgcaaaaaa acacgcaaa 
      gaatggcat ttgacacat tggtccaaa ttacagttt 
      cctgtaatc ctgttgcag attgatgac tggttcaaa 
      tgcctcgat ggcctgatg gaaatacta atctcgaag 
      aaggttgtt ttagcttta attatccta gctgccata 
      tctttttat atcagttat acattcaac acttgtcta 
      gtcagtagc atagccaaa gcgttgccg aaatggcgc 
      caccacccg gtagtcccc aacgacacc cccatcatc 
      cactaccac acctccgtt cgcgtcgtc cccctcctc 
      gaaagtaac gaatcagac atatcgccg aaatacaag 
      tttttccgc gaacagggt ctgcgcccc atgcgccaa 
      cttccaagt gctttaata atcggagtg aagaaaggg 
      ggcaccagg gccctcctc gagttcatc cgcatccac 
      ccggatgtg cgtgccgcc ggcagcgag gtgcatttc 
      ttcgataaa aactaccct cggggcttc cagtggtac 
      cgccaacgc atgccccca acactcgag ggccaactc 
      accatcgaa aaaacaccg tcgtatttt ataaccaag 
      gaagcgccg agacgtgta caacatatg aatccctcc 
      actaaactt ctagtagta gttagagat ccggtcact 
      agggctatc tccgattac acgcaagcg atttcgaaa 
      aaacccgac atgaaaccc tttgatcag cttgttttt 
      atcaatagt acgatcggg tgcattgtt gatacttcc 
      tgggggccc gttaaattg gggctctat tcccgatac 
      ttgtccagg tggttgaag tattttccg ttgtcacag 
      tttttgttc ataagtggg gaacggtta gttgtggat 
      ccggcgatt gagttgaaa agggttcag gatttttta 
      gggctcaag cgagtggtt tccgagaga cacttttat 
      tttaattca accaaaggg tttccctgt ttgtttaaa 
      agtgaaggg catagcacc ccgcactgt ttggggaaa 
      accaaaggg cggaatcat ccctatatt gaccccatc 
      gttatccaa agattgagg gatttttac agacccttt 
      aataatagg ttttaccaa atgaccgga attaatttc 
      ggttgggct tga
    mRNA sequence
    • >TC005759 RA
      tttcgaggt taggctatc aagggtcaa cggaaaaat 
      ggaacaatc ttgccccaa attaagtca gtgataaaa 
      ataaacgtg aaagcaaca tgcctggcc cgaaagcgt 
      gcaaaaaaa cacgcaaag aatggcatt tgacacatt 
      ggtccaaat tacagtttc ctgtaatcc tgttgcaga 
      ttgatgact ggttcaaat gcctcgatg gcctgatgg 
      aaatactaa tctcgaaga aggttgttt tagctttaa 
      ttatcctag ctgccatat ctttttata tcagttata 
      cattcaaca cttgtctag tcagtagca tagccaaag 
      cgttgccga aatggcgcc accacccgg tagtcccca 
      acgacaccc ccatcatcc actaccaca cctccgttc 
      gcgtcgtcc ccctcctcg aaagtaacg aatcagaca 
      tatcgccga aatacaagt ttttccgcg aacagggtc 
      tgcgcccca tgcgccaac ttccaagtg ctttaataa 
      tcggagtga agaaagggg gcaccaggg ccctcctcg 
      agttcatcc gcatccacc cggatgtgc gtgccgccg 
      gcagcgagg tgcatttct tcgataaaa actaccctc 
      ggggcttcc agtggtacc gccaacgca tgcccccaa 
      cactcgagg gccaactca ccatcgaaa aaacaccgt 
      cgtatttta taaccaagg aagcgccga gacgtgtac 
      aacatatga atccctcca ctaaacttc tagtagtag 
      ttagagatc cggtcacta gggctatct ccgattaca 
      cgcaagcga tttcgaaaa aacccgaca tgaaaccct 
      ttgatcagc ttgttttta tcaatagta cgatcgggt 
      gcattgttg atacttcct gggggcccg ttaaattgg 
      ggctctatt cccgatact tgtccaggt ggttgaagt 
      attttccgt tgtcacagt ttttgttca taagtgggg 
      aacggttag ttgtggatc cggcgattg agttgaaaa 
      gggttcagg attttttag ggctcaagc gagtggttt 
      ccgagagac acttttatt ttaattcaa ccaaagggt 
      ttccctgtt tgtttaaaa gtgaagggc atagcaccc 
      cgcactgtt tggggaaaa ccaaagggc ggaatcatc 
      cctatattg accccatcg ttatccaaa gattgaggg 
      atttttaca gacccttta ataataggt tttaccaaa 
      tgaccggaa ttaatttcg gttgggctt gaataataa 
      tatacacga aaagtattg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY