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Gene information
General information
TC013917 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_007420.3: 2200326..2204435
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
    TC013917
    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_08202

    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: 50.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 5 (9 dpi)
    Days post injection


    Adult morphology
    abdominal odoriferous glands content irregular - Number of animals showing the phenotype: 3 (13 dpi)
    Days post injection



    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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): more than 80%
    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
    • >TC013917 RA
      MKILIFAFL ALAAYVAAD NKVVCYYNS KAYFRDGQG 
      KFDVNFIDP ALQFCTHLI YGYAGINAE TFKAQPLNE 
      LFDVTRDNY RHITELKRR FPGLRVLLS VGGGEDIGD 
      DGNIKYRTI LESVDHRLA FVNSAQALV KNFGFDGLD 
      LAWEFPETK PKKIRGKIS SFFSKLKHK IVGESVIDE 
      KAEEHKEQF TALVREIRN AFRHDGLLL TMSVLPNVN 
      SSVYYDPRA LAPNLDFIT LEAFDFYTP KRNPKEADY 
      PAPLYELID RKYDENVDY QVRYWLQKG APNNKLILG 
      IPAYGRAWK MDEDSSISG VPPLSIDGA LEAGPYSKE 
      EGLLSYPEV CVKLANPQK LTTAAGKHL RKVGDPSKR 
      KGTYAFRTP DENGEGGAW VGYEDPDTA GNKASYARA 
      KGLGGIAIV DITLDDFRG LCTGNKYPI LRAAKLGL
    CDS sequence
    • >TC013917 RA
      atgaaaatt cttattttt gcctttttg gcactggca 
      gcctatgtg gcggctgac aataaggtc gtgtgctat 
      tacaacagc aaggcgtac ttcagggac ggtcaggga 
      aaattcgac gtgaacttc atagacccc gctctacaa 
      ttctgcaca cacttaatt tatggttac gctggcatt 
      aatgccgaa actttcaaa gcacaacct ttgaatgaa 
      cttttcgat gtcaccaga gacaattat agacacatc 
      accgaattg aagagacgt tttcctgga ttgagagtc 
      cttttatcg gttggcgga ggtgaagat atcggagat 
      gatggcaat atcaaatat aggacaatt ctcgaatca 
      gttgaccac cgcttggct ttcgtcaac tcggctcaa 
      gccctagtc aagaatttc ggcttcgac ggcttggac 
      ctagcttgg gaattcccc gaaaccaaa ccgaagaaa 
      atcagaggc aaaatcagc tcgttcttc agcaaactc 
      aaacacaaa attgtcggc gagtctgtg attgacgag 
      aaggccgaa gaacacaaa gaacaattc acggcactc 
      gtccgtgaa atcagaaac gccttcaga cacgatggc 
      ctcttatta acaatgagt gtcctaccc aacgtaaac 
      agctcagtt tattacgac ccccgtgcc ttggccccc 
      aacctggac ttcatcacc ctcgaagcc ttcgacttc 
      tacaccccc aaacgcaac cccaaagag gccgactac 
      cccgccccc ctctacgaa ctaatcgac cgaaaatac 
      gacgaaaat gttgactac caagtcaga tattggttg 
      caaaagggg gcccccaac aacaagctc atcctggga 
      atccccgcg tacggccgc gcctggaaa atggacgag 
      gactcctcg atcagtggg gttcccccg ctttcgatc 
      gacggtgcc ctcgaggcg ggcccttac agcaaagag 
      gagggcctt ttgagctac cccgaagtg tgcgttaaa 
      cttgccaac ccccagaaa ctgaccaca gctgctggg 
      aaacatttg aggaaagtc ggagatccc tccaagagg 
      aaagggact tatgcgttc cgcacccct gatgaaaat 
      ggagaaggt ggggcttgg gtcgggtat gaggacccc 
      gacactgca ggaaataaa gcttcgtat gccagagca 
      aagggattg ggtggtatt gccattgtg gatatcacc 
      ttagacgat tttaggggg ctctgtacc ggtaataaa 
      tacccaatt ttgcgtgcc gctaagctt ggattgtaa
    mRNA sequence
    • >TC013917 RA
      agcattgaa tcagaatgt ttcaacaat aatgataaa 
      atatattag atgttttta aactgttaa aaagcgtgg 
      ctttccccc ctctgaaca aacgatgac gcttcttgt 
      gtgaaaatc gctaaaaag aacaccacg aaagtagac 
      gtccagtgt ctcgtgagc tgttttgct aagaacatt 
      gcagacatc atgaaaatt cttattttt gcctttttg 
      gcactggca gcctatgtg gcggctgac aataaggtc 
      gtgtgctat tacaacagc aaggcgtac ttcagggac 
      ggtcaggga aaattcgac gtgaacttc atagacccc 
      gctctacaa ttctgcaca cacttaatt tatggttac 
      gctggcatt aatgccgaa actttcaaa gcacaacct 
      ttgaatgaa cttttcgat gtcaccaga gacaattat 
      agacacatc accgaattg aagagacgt tttcctgga 
      ttgagagtc cttttatcg gttggcgga ggtgaagat 
      atcggagat gatggcaat atcaaatat aggacaatt 
      ctcgaatca gttgaccac cgcttggct ttcgtcaac 
      tcggctcaa gccctagtc aagaatttc ggcttcgac 
      ggcttggac ctagcttgg gaattcccc gaaaccaaa 
      ccgaagaaa atcagaggc aaaatcagc tcgttcttc 
      agcaaactc aaacacaaa attgtcggc gagtctgtg 
      attgacgag aaggccgaa gaacacaaa gaacaattc 
      acggcactc gtccgtgaa atcagaaac gccttcaga 
      cacgatggc ctcttatta acaatgagt gtcctaccc 
      aacgtaaac agctcagtt tattacgac ccccgtgcc 
      ttggccccc aacctggac ttcatcacc ctcgaagcc 
      ttcgacttc tacaccccc aaacgcaac cccaaagag 
      gccgactac cccgccccc ctctacgaa ctaatcgac 
      cgaaaatac gacgaaaat gttgactac caagtcaga 
      tattggttg caaaagggg gcccccaac aacaagctc 
      atcctggga atccccgcg tacggccgc gcctggaaa 
      atggacgag gactcctcg atcagtggg gttcccccg 
      ctttcgatc gacggtgcc ctcgaggcg ggcccttac 
      agcaaagag gagggcctt ttgagctac cccgaagtg 
      tgcgttaaa cttgccaac ccccagaaa ctgaccaca 
      gctgctggg aaacatttg aggaaagtc ggagatccc 
      tccaagagg aaagggact tatgcgttc cgcacccct 
      gatgaaaat ggagaaggt ggggcttgg gtcgggtat 
      gaggacccc gacactgca ggaaataaa gcttcgtat 
      gccagagca aagggattg ggtggtatt gccattgtg 
      gatatcacc ttagacgat tttaggggg ctctgtacc 
      ggtaataaa tacccaatt ttgcgtgcc gctaagctt 
      ggattgtaa ttaaaagcg atttccact aattgtgtt 
      attttatgt aaagtgata ttgtgattt tgacaaata 
      aacttttta caaaaaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY