Status
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Gene information
General information
TC001566 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: 3604552..3606816
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
    TC001566
    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
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    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_07948

    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)

    Fertility
    mature egg deposition blocked number 1st lateral oviduct: 3 number 2nd lateral oviduct: 2 - Number of animals showing the phenotype: 2
    mature egg deposition blocked number 1st lateral oviduct: 3 number 2nd lateral oviduct: - Number of animals showing the phenotype: 1
    ovary without detectable defects - Number of animals showing the phenotype: 1
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    embryo/egg with muscle fluorescence/pattern, but not hatched (pot. late embryonic lethality) - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): less than 30%
    cuticle remnants with unidentifyable segments - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larva complete everted (inside-out) - Penetrance (percentage of animals/eggs on slide): less than 30%

    head not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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
    • >TC001566 RA
      MRLSVSVIS VGLFLAFIL HSIWNLVGI FRVPTCTKG 
      EKCYISYLN TNPNLDLLL FVSDNSRSG NVEQVFSLE 
      KFDYNSRIE KEIPIQLSK TVRNNGSLY VHTIVIPSN 
      SRKRDYTLN DLINQQEAT YLKYSLTQY TIPASATFN 
      LLKEESKKQ NVKPVTHLR SKFSVIMCT DKFELSSSN 
      IPVEIIRHL RINYRKQFL PIIQRDIMQ MRLRDLVEV 
      TKDMREATI LFTYTPVSI GKIRFVSQI DSTLHQFIA 
      LGFTEKDLD EVKGVFADT NLYLLCATV LIGSIHLLL 
      DFLSFKNDV KFWKAQTSM AGLSTSSVL WRAFSQTVI 
      FLYLLDEGT SLLVLIPSG IATIIEFWK VSKVLKKSI 
      KWDGGLKFS KGEEESAEE LQTRKYDEE CMKYLCYLL 
      YPLCAGAAI YSLLYQPHK SWYSWTINS LVNGVYAFG 
      FLFMLPQLF INYRLKSVA ALPWRAFTY RAFNTFIDD 
      IFAFIITMP TAHRVACFR DDVVFLIYL YQRWLYPVD 
      KTRIDDVTS ETILSEDES KKNN
    CDS sequence
    • >TC001566 RA
      atgaggtta tcggtgtcg gtgatttca gtcggttta 
      tttcttgca tttatttta cattcgata tggaatttg 
      gtcggaata ttccgagtt ccgacgtgc acaaaaggc 
      gagaaatgt tatatctcg tatttaaac acgaacccg 
      aacctcgac ttgttactc ttcgtgtct gataactcc 
      aggtcaggt aacgtggaa caagtgttt agtttggag 
      aagtttgat tacaacagc agaatagag aaagaaatt 
      ccaattcag cttagcaag actgtgagg aataatggt 
      agcttgtac gttcacaca atcgtcatt ccaagcaat 
      tccagaaag agagactac actttaaat gatttaata 
      aaccagcaa gaagctact tatctcaaa tattcccta 
      acacagtac acaatacct gcaagtgca acgttcaat 
      ttactgaag gaggaatca aaaaaacag aatgtgaaa 
      ccagtcacg catttacgg tcgaaattt tccgtaatc 
      atgtgcaca gacaaattc gagttatcc tcgtcaaac 
      attccagta gaaattatc aggcattta agaatcaat 
      tacaggaag cagtttttg ccaattata caacgtgat 
      attatgcaa atgagattg agagacttg gtagaagtg 
      accaaagat atgagagag gctactata cttttcact 
      tacacgcca gtctctatt ggaaaaatc cgatttgta 
      tcacagata gactcaact ttgcaccag tttattgct 
      ctgggattc accgaaaaa gatttggac gaagtgaag 
      ggggttttt gcagacaca aacctttac ctgctgtgt 
      gcaacagtc ctcattggc agcatccat ttacttctt 
      gattttctg tcgttcaaa aacgatgtt aaattctgg 
      aaagctcaa acttcaatg gctgggtta tccaccagc 
      agtgttcta tggcgagct ttctcccaa actgttata 
      tttttgtat ctcttagat gagggcacg tctttatta 
      gttttaata ccaagtggg attgcgaca ataattgaa 
      ttttggaaa gttagtaag gttctcaaa aaaagtatc 
      aagtgggat ggtggtctc aaattcagc aaaggtgaa 
      gaagaaagt gcagaagaa ttacaaacg cggaaatat 
      gatgaagag tgtatgaaa tatttatgt tatcttctg 
      tatccctta tgtgctggt gctgctatt tattcatta 
      ctgtatcaa cctcataaa agttggtat tcctggacc 
      atcaatagt ctagtaaat ggcgtgtat gcatttggt 
      ttcctcttc atgcttcct caattattt ataaactac 
      cgactgaaa tcagtcgct gcattgcct tggagggca 
      ttcacttac agagcattt aacactttc attgacgat 
      atttttgca tttattatt acaatgccg acggcacat 
      cgagtggcg tgcttcagg gatgatgta gttttctta 
      atatacttg taccaaaga tggttgtat cctgttgat 
      aaaacacga attgacgac gtcacaagt gaaacaatt 
      ttaagcgaa gatgaaagt aaaaaaaat aattaa
    mRNA sequence
    • >TC001566 RA
      tacgtttca atcaattaa ttaacatat ctggcgctt 
      tgaaccacc ctgtctcga aattttttg aaaattttg 
      tgacaggta cgtcatttt tgacatttg ttgacgtag 
      aaattcaaa atgaggtta tcggtgtcg gtgatttca 
      gtcggttta tttcttgca tttatttta cattcgata 
      tggaatttg gtcggaata ttccgagtt ccgacgtgc 
      acaaaaggc gagaaatgt tatatctcg tatttaaac 
      acgaacccg aacctcgac ttgttactc ttcgtgtct 
      gataactcc aggtcaggt aacgtggaa caagtgttt 
      agtttggag aagtttgat tacaacagc agaatagag 
      aaagaaatt ccaattcag cttagcaag actgtgagg 
      aataatggt agcttgtac gttcacaca atcgtcatt 
      ccaagcaat tccagaaag agagactac actttaaat 
      gatttaata aaccagcaa gaagctact tatctcaaa 
      tattcccta acacagtac acaatacct gcaagtgca 
      acgttcaat ttactgaag gaggaatca aaaaaacag 
      aatgtgaaa ccagtcacg catttacgg tcgaaattt 
      tccgtaatc atgtgcaca gacaaattc gagttatcc 
      tcgtcaaac attccagta gaaattatc aggcattta 
      agaatcaat tacaggaag cagtttttg ccaattata 
      caacgtgat attatgcaa atgagattg agagacttg 
      gtagaagtg accaaagat atgagagag gctactata 
      cttttcact tacacgcca gtctctatt ggaaaaatc 
      cgatttgta tcacagata gactcaact ttgcaccag 
      tttattgct ctgggattc accgaaaaa gatttggac 
      gaagtgaag ggggttttt gcagacaca aacctttac 
      ctgctgtgt gcaacagtc ctcattggc agcatccat 
      ttacttctt gattttctg tcgttcaaa aacgatgtt 
      aaattctgg aaagctcaa acttcaatg gctgggtta 
      tccaccagc agtgttcta tggcgagct ttctcccaa 
      actgttata tttttgtat ctcttagat gagggcacg 
      tctttatta gttttaata ccaagtggg attgcgaca 
      ataattgaa ttttggaaa gttagtaag gttctcaaa 
      aaaagtatc aagtgggat ggtggtctc aaattcagc 
      aaaggtgaa gaagaaagt gcagaagaa ttacaaacg 
      cggaaatat gatgaagag tgtatgaaa tatttatgt 
      tatcttctg tatccctta tgtgctggt gctgctatt 
      tattcatta ctgtatcaa cctcataaa agttggtat 
      tcctggacc atcaatagt ctagtaaat ggcgtgtat 
      gcatttggt ttcctcttc atgcttcct caattattt 
      ataaactac cgactgaaa tcagtcgct gcattgcct 
      tggagggca ttcacttac agagcattt aacactttc 
      attgacgat atttttgca tttattatt acaatgccg 
      acggcacat cgagtggcg tgcttcagg gatgatgta 
      gttttctta atatacttg taccaaaga tggttgtat 
      cctgttgat aaaacacga attgacgac gtcacaagt 
      gaaacaatt ttaagcgaa gatgaaagt aaaaaaaat 
      aattaacta cgtaaaggt cttagagaa tattataa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY