Status
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Gene information
General information
TC002309 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.

NW_015451937.1: 712197..717151
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
    TC002309
    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_03350

    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


    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
    • >TC002309 RA
      MQALQSIRK SNIFLFVII YLSFFLDNV LLTVVVPII 
      PDYLFSNQL KADSRLGLK SLSPLQEKF EVLENDNGP 
      LGTLLASKA FVQLAFTPF IGYLTETVG CCIPLLLGS 
      CNMLVAAIL FAYGNSYGA LVLARALHG SSSAAIAVS 
      GMSILAKNV SQELRARLM PLAFGGIAL GVLIGYPLG 
      GAAYQLLGK SAPFLLIAF LISISIVLQ ILYIEDGTN 
      DVIIDEINC SQFISLLQD KQIIITTFT ICICTSTMA 
      ILEPCVPMW LLAHLNPPP SRWQLGAVF IPDSVGYFI 
      GSHFAGLLP IAPWRIAFS ALVLAGLSC CALPLAVSI 
      YQLSIPHFG LGLSVGAVD AALVPYLAN LVDSKGSNQ 
      YGTVYALQQ VFVSLAYAF GPLLGGHAV RILGFPWLM 
      RLIGFMNLM FCPLLLELE KDPKVSLLD DVYNTPKSY 
      STLDNTYSS LEEETY
    CDS sequence
    • >TC002309 RA
      atgcaagcc ctacaatct atacgaaag tcaaatatt 
      tttttattt gttatcatt tatttatca ttttttctt 
      gacaatgtg cttcttact gtagttgtt ccaattatt 
      cctgattat ttattctca aaccaactt aaagctgat 
      tcgagactg ggtcttaag tcactaagt cctctgcag 
      gaaaaattt gaagtttta gagaacgat aatgggcct 
      ttaggaact cttctagca tcgaaggct tttgtccag 
      ttggctttt actcccttc attggttat ctcactgaa 
      actgtgggt tgttgcata ccattgcta ctaggatcg 
      tgtaacatg cttgtggct gcaattttg tttgcttat 
      ggtaactca tatggtgcc ctagttcta gcaagggct 
      ctccatggt agttcctct gcagcaata gcagtgagt 
      ggtatgtca attctagca aaaaacgtc tctcaggag 
      ttaagagca agactgatg cctcttgct tttggaggt 
      atagcacta ggagttttg attggttac ccacttgga 
      ggagccgct tatcaacta cttggaaaa tcagccccg 
      tttttattg attgcgttt ttaatatca atcagcatt 
      gttcttcaa atattgtat attgaggat ggtacaaac 
      gatgttata attgatgaa attaactgt agtcaattt 
      ataagtctt ttgcaagac aagcaaata ataattaca 
      acttttacg atttgtatt tgtacttct acgatggca 
      attttggaa ccttgtgta cctatgtgg ttgttggcc 
      catttgaat cctcctcca tcacggtgg cagttaggg 
      gctgttttt ataccggat agtgttggc tatttcatc 
      ggctctcat tttgctggt cttcttcct attgcgcct 
      tggcgaata gctttcagt gcattggtt ctagcaggt 
      ttaagctgt tgcgctttg cctttagcc gtctccatt 
      tatcaacta tcgattccc catttcgga cttggacta 
      agtgtgggc gctgtagac gcagcccta gttccatat 
      ttagctaat ttagttgac agtaaaggg agcaatcag 
      tacggaacc gtttacgcc cttcaacaa gtttttgtc 
      agcttggct tatgctttt ggcccttta ttaggagga 
      catgctgtg cgtatttta ggctttccg tggttaatg 
      agactgatt gggtttatg aatttgatg ttttgtcca 
      ttattgttg gaattagag aaggatcct aaagttagt 
      ttgcttgac gatgtctac aatactcca aaatcgtac 
      tccacactt gataatact tactcatct ttagaggaa 
      gaaacttac taa
    mRNA sequence
    • >TC002309 RA
      gtttagttt aaagttggt gttccgaca gaatgcaag 
      ccctacaat ctatacgaa agtcaaata tttttttat 
      ttgttatca tttatttat cattttttc ttgacaatg 
      tgcttctta ctgtagttg ttccaatta ttcctgatt 
      atttattct caaaccaac ttaaagctg attcgagac 
      tgggtctta agtcactaa gtcctctgc aggaaaaat 
      ttgaagttt tagagaacg ataatgggc ctttaggaa 
      ctcttctag catcgaagg cttttgtcc agttggctt 
      ttactccct tcattggtt atctcactg aaactgtgg 
      gttgttgca taccattgc tactaggat cgtgtaaca 
      tgcttgtgg ctgcaattt tgtttgctt atggtaact 
      catatggtg ccctagttc tagcaaggg ctctccatg 
      gtagttcct ctgcagcaa tagcagtga gtggtatgt 
      caattctag caaaaaacg tctctcagg agttaagag 
      caagactga tgcctcttg cttttggag gtatagcac 
      taggagttt tgattggtt acccacttg gaggagccg 
      cttatcaac tacttggaa aatcagccc cgtttttat 
      tgattgcgt ttttaatat caatcagca ttgttcttc 
      aaatattgt atattgagg atggtacaa acgatgtta 
      taattgatg aaattaact gtagtcaat ttataagtc 
      ttttgcaag acaagcaaa taataatta caactttta 
      cgatttgta tttgtactt ctacgatgg caattttgg 
      aaccttgtg tacctatgt ggttgttgg cccatttga 
      atcctcctc catcacggt ggcagttag gggctgttt 
      ttataccgg atagtgttg gctatttca tcggctctc 
      attttgctg gtcttcttc ctattgcgc cttggcgaa 
      tagctttca gtgcattgg ttctagcag gtttaagct 
      gttgcgctt tgcctttag ccgtctcca tttatcaac 
      tatcgattc cccatttcg gacttggac taagtgtgg 
      gcgctgtag acgcagccc tagttccat atttagcta 
      atttagttg acagtaaag ggagcaatc agtacggaa 
      ccgtttacg cccttcaac aagtttttg tcagcttgg 
      cttatgctt ttggccctt tattaggag gacatgctg 
      tgcgtattt taggctttc cgtggttaa tgagactga 
      ttgggttta tgaatttga tgttttgtc cattattgt 
      tggaattag agaaggatc ctaaagtta gtttgcttg 
      acgatgtct acaatactc caaaatcgt actccacac 
      ttgataata cttactcat ctttagagg aagaaactt 
      actaaactg tgtgttgta tcttgattg ttattcctt 
      gtgaaattt attcggcca atttattcg taaatctga 
      tgtaataaa ttgacagtg tttga
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY