Status
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Gene information
General information
TC016342 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_007422.5: 6818541..6820106
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
    TC016342
    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_06004

    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: 100.0% (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


    adult lethality - Number of animals showing the phenotype: 8 (9 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    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: -1.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: -1.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC016342 RA
      MSGEVINEV NNLQVTEKT KDDVDDDFV DPWNVVSKS 
      EKGIDYDKL ITKFGSSKI DKELLDRFE KVTGKRVHH 
      FLRRGIVFS HRDLHSILT LHESGKPFY LYTGRGPSS 
      NSMHVGHLV PFIFCKWLQ DIFNVPLVI QLTDDEKFL 
      WKDLKMEEV HKMTMENAK DIIAVGFDP EKTFMFSDL 
      NYIGQCPEF YQNMVRIQR CVTFNQVKG IFGFDDSSV 
      IGKVAFPAV QATPALSTS FPHIFKGKK VPCLIPCAI 
      DQDPYFRMT RDVAPRIGF KKPALLHST FFPALQGAQ 
      TKMSASDPN STIYLSDTP KQVKNKINK HAFSGGQST 
      VEEHRQLGG NCDIDIAYQ YLTFFLEDD DKLEQIRKD 
      YTSGALLTG ELKKILVDI LTPIVMQHQ ERRAKVTDD 
      VIKQFMTPR ELAFNI
    CDS sequence
    • >TC016342 RA
      atgtctggg gaagtgatt aacgaagtt aacaatttg 
      caagttacc gaaaaaact aaagacgac gtcgacgac 
      gattttgta gacccttgg aatgtagtg agtaaatcg 
      gaaaaaggc attgattac gacaaacta ataaccaaa 
      ttcggttca agtaaaata gataaagaa ctgttggac 
      cgctttgaa aaggtgaca ggaaagcga gttcaccat 
      ttcttgcgt cgcgggatt gtgttttca caccgagac 
      ctgcattcc attttaaca ttgcatgag agtggcaaa 
      cctttttat ctgtacact ggacgtggg ccctcctct 
      aactccatg catgtgggg caccttgta ccttttatt 
      ttttgtaaa tggttgcaa gatattttc aatgtgccc 
      ctagtcatt caactgacc gatgacgag aaattcttg 
      tggaaagac ctgaaaatg gaagaggtg cacaaaatg 
      accatggaa aatgctaaa gatataata gctgtgggg 
      tttgatccg gaaaaaacc ttcatgttt tcggatctc 
      aactacatt ggccaatgt ccggaattt taccaaaac 
      atggtgagg atccaacgc tgcgtcact tttaaccag 
      gtcaaaggg attttcggc tttgacgac agttctgtt 
      atcggaaag gtggctttt ccggcggtt caagcaacg 
      ccagctctc tcaacgtcc ttccctcac atcttcaaa 
      gggaagaaa gtcccgtgt ttgatccct tgcgccata 
      gaccaggac ccttatttc aggatgacg cgggatgtg 
      gcccccagg atagggttt aaaaaacca gccctgtta 
      cattcaacg ttttttccg gctctgcaa ggggcccaa 
      actaaaatg tcggcctct gaccccaac tctaccatt 
      tacctaagt gatacgcca aaacaagtg aaaaataaa 
      atcaacaaa cacgcattt tcggggggg cagagcacc 
      gttgaggag cacaggcag ctagggggg aactgtgat 
      attgacatt gcttatcag tatttgact ttcttcttg 
      gaagatgat gacaagctt gaacagatt agaaaggac 
      tacacgagt ggggcgttg ctgactggg gaattgaag 
      aaaatcctt gttgatatt ttgacgccg attgtaatg 
      caacatcaa gaacgcaga gcgaaggtt acagatgat 
      gttataaaa cagtttatg acgccaaga gagttggct 
      ttcaatatt taa
    mRNA sequence
    • >TC016342 RA
      acagtcatt tgaggtaac ctcaattcc acgttgttc 
      tttagtgac tgatttcag tatttctat ttattaaaa 
      ctaatttaa acatgtctg gggaagtga ttaacgaag 
      ttaacaatt tgcaagtta ccgaaaaaa ctaaagacg 
      acgtcgacg acgattttg tagaccctt ggaatgtag 
      tgagtaaat cggaaaaag gcattgatt acgacaaac 
      taataacca aattcggtt caagtaaaa tagataaag 
      aactgttgg accgctttg aaaaggtga caggaaagc 
      gagttcacc atttcttgc gtcgcggga ttgtgtttt 
      cacaccgag acctgcatt ccattttaa cattgcatg 
      agagtggca aaccttttt atctgtaca ctggacgtg 
      ggccctcct ctaactcca tgcatgtgg ggcaccttg 
      tacctttta ttttttgta aatggttgc aagatattt 
      tcaatgtgc ccctagtca ttcaactga ccgatgacg 
      agaaattct tgtggaaag acctgaaaa tggaagagg 
      tgcacaaaa tgaccatgg aaaatgcta aagatataa 
      tagctgtgg ggtttgatc cggaaaaaa ccttcatgt 
      tttcggatc tcaactaca ttggccaat gtccggaat 
      tttaccaaa acatggtga ggatccaac gctgcgtca 
      cttttaacc aggtcaaag ggattttcg gctttgacg 
      acagttctg ttatcggaa aggtggctt ttccggcgg 
      ttcaagcaa cgccagctc tctcaacgt ccttccctc 
      acatcttca aagggaaga aagtcccgt gtttgatcc 
      cttgcgcca tagaccagg acccttatt tcaggatga 
      cgcgggatg tggccccca ggatagggt ttaaaaaac 
      cagccctgt tacattcaa cgttttttc cggctctgc 
      aaggggccc aaactaaaa tgtcggcct ctgacccca 
      actctacca tttacctaa gtgatacgc caaaacaag 
      tgaaaaata aaatcaaca aacacgcat tttcggggg 
      ggcagagca ccgttgagg agcacaggc agctagggg 
      ggaactgtg atattgaca ttgcttatc agtatttga 
      ctttcttct tggaagatg atgacaagc ttgaacaga 
      ttagaaagg actacacga gtggggcgt tgctgactg 
      gggaattga agaaaatcc ttgttgata ttttgacgc 
      cgattgtaa tgcaacatc aagaacgca gagcgaagg 
      ttacagatg atgttataa aacagttta tgacgccaa 
      gagagttgg ctttcaata tttaattgt tgcttattt 
      attatattt atcattgtt ttatttctt tttttgtac 
      cattgtgag cacaattac ctacaaagt gaataaaaa 
      ttttgttgg cca
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY