Status
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Gene information
General information
TC013608 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_007416.3: 3165802..3180346
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
    TC013608
    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_05463

    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)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    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: 22.22% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 22.22% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC013608 RA
      MRVFIFVAI LCAVHVESQ FWKYPQQLI STWLRQGKT 
      GSDKVTTIP PATVAKLTT KPPVTKGAP LKSESKRPT 
      KAKTTMGAT TAKTTMVPV TTTKLNGTV TTRRIISTS 
      SAATETSTI VETTTHEVT ATTEEPREN QRTHDFYLS 
      KREKPQVKI ASNISQNLL PLPAGASAA LVKPTKYHY 
      YPHNQHIYL LPECAIQQV CNAVYVRLN WTQPLCACP 
      SRYRDPCSA SLNSDDQHT TELMIDRKS RRALTLVKT 
      CEPTSDMRI CRSPRDWSL LALQNIRTG KSHYLVICR 
      CPEVSILEG PMSHDQPTY ASVPGIRVY GMMCVDGKR 
      RGRPLRTSR SVETPPFPW DKAEELAKT ALWD
    CDS sequence
    • >TC013608 RA
      atgcgcgtc ttcattttc gtcgcaatt ctgtgcgcg 
      gtccacgtc gagtcgcag ttctggaag tacccccag 
      cagctgatc tccacctgg ctgcgccag ggcaagacc 
      gggagtgac aaagtgacg acgattccg ccggccacg 
      gtggccaag ctcaccacc aagcccccc gtcaccaag 
      ggcgcgccg ctcaagagc gagagcaag cggcccacc 
      aaggccaag accacgatg ggggcgacc acggccaag 
      accacgatg gtgccggtg acgaccacg aagctcaac 
      gggactgtc actaccagg agaattatc tccacgtcg 
      agcgcggcc accgagacc agcaccatc gtcgaaact 
      accacccat gaagtcaca gccaccacg gaagagccc 
      agggagaat caaaggacc cacgacttc tacctcagc 
      aaaagggag aagccgcaa gttaaaatc gcctccaat 
      atcagccag aatctgtta cccctgcct gctggagcc 
      agtgcagct ctcgtcaag ccgacgaaa taccactac 
      tacccccac aaccagcac atatatctc ctgccagaa 
      tgcgcaatt cagcaagtg tgtaatgcc gtttatgtc 
      agattgaac tggacgcag cctctttgt gcttgtcct 
      tcgaggtat cgtgatcct tgctcggca tcgctcaat 
      tccgatgat caacacacg accgaactg atgattgac 
      aggaagtcc aggcgcgca ctgacgtta gtgaagact 
      tgcgagcca acctcggac atgcgaata tgtcgctcg 
      ccgcgggac tggtccctc ttagccctt cagaacatc 
      cggacggga aaatcgcac tatttagta atttgccga 
      tgtcccgaa gttagcata ctggagggg cccatgtcc 
      cacgaccag ccaacctac gccagcgtc cctggcatc 
      cgagtctac ggaatgatg tgcgtcgac ggcaaacgc 
      cgcggacgg cccttgcgg acctcccgg tcggtggaa 
      acgcccccc ttcccgtgg gacaaggcg gaagaatta 
      gcgaaaacc gcactgtgg gattaa
    mRNA sequence
    • >TC013608 RA
      agaccttcg caagcctcc gcaagtacc accggctag 
      taccaccaa ggacgcggc cgcgaacaa ctcaagaaa 
      ttgacggag ccgcggaaa tatatcgcc catttggtc 
      tgcagttcc ggcaaattt cacaatgcg cgtcttcat 
      tttcgtcgc aattctgtg cgcggtcca cgtcgagtc 
      gcagttctg gaagtaccc ccagcagct gatctccac 
      ctggctgcg ccagggcaa gaccgggag tgacaaagt 
      gacgacgat tccgccggc cacggtggc caagctcac 
      caccaagcc ccccgtcac caagggcgc gccgctcaa 
      gagcgagag caagcggcc caccaaggc caagaccac 
      gatgggggc gaccacggc caagaccac gatggtgcc 
      ggtgacgac cacgaagct caacgggac tgtcactac 
      caggagaat tatctccac gtcgagcgc ggccaccga 
      gaccagcac catcgtcga aactaccac ccatgaagt 
      cacagccac cacggaaga gcccaggga gaatcaaag 
      gacccacga cttctacct cagcaaaag ggagaagcc 
      gcaagttaa aatcgcctc caatatcag ccagaatct 
      gttacccct gcctgctgg agccagtgc agctctcgt 
      caagccgac gaaatacca ctactaccc ccacaacca 
      gcacatata tctcctgcc agaatgcgc aattcagca 
      agtgtgtaa tgccgttta tgtcagatt gaactggac 
      gcagcctct ttgtgcttg tccttcgag gtatcgtga 
      tccttgctc ggcatcgct caattccga tgatcaaca 
      cacgaccga actgatgat tgacaggaa gtccaggcg 
      cgcactgac gttagtgaa gacttgcga gccaacctc 
      ggacatgcg aatatgtcg ctcgccgcg ggactggtc 
      cctcttagc ccttcagaa catccggac gggaaaatc 
      gcactattt agtaatttg ccgatgtcc cgaagttag 
      catactgga ggggcccat gtcccacga ccagccaac 
      ctacgccag cgtccctgg catccgagt ctacggaat 
      gatgtgcgt cgacggcaa acgccgcgg acggccctt 
      gcggacctc ccggtcggt ggaaacgcc ccccttccc 
      gtgggacaa ggcggaaga attagcgaa aaccgcact 
      gtgggatta acaatagca caattgtga tctagcaat 
      tttccccga gattttctt gcatttatt ctagatttt 
      agtgtgtgt tcttagcta aagacttct aaataatgc 
      gaataattt tagtcttat cgccatgtt taaaacaac 
      agtggtcgc aatttttga cgactgctc taccgggaa 
      ccccatttt gaaggcact ttcgaagtg tggttccgt 
      ttctgtaat ttttttaaa catggctag atgggttaa 
      tcactacta acttgcggt ggacggttt aaacaatta 
      tttatttat ttaagttat ttttaaatt atttatatt 
      tcctgcttt ttatttata tttttgtat atatggcgc 
      gacaataaa gcgaaactc tgact
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY