Status
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Gene information
General information
TC011709 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_007424.3: 14632807..14638884
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
    TC011709
    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
    {{ goGene }}
    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_05086

    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: < 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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 40.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection


    Adult morphology
    legs femur size shortened -

    Comment: femur of all three leg-pairs shortened

    Fertility
    egg production: number <50% of expected -
    ovary without detectable defects - Number of animals showing the phenotype: 4
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011709 RA
      MSVFGMVSA VAGFIKVRY LIDKAMIDN MVFRAHYRV 
      TSAILFVCC IIVTANNLI GYPIQCIND RGVPGHVIN 
      TYCWITYTF TLPHEQGKY IGSEVAHPG LGNDNQEKR 
      YHSYYQWVP FVLFFQGVL FYMPHWIWK MWENDKIRM 
      ISEGMRGAL VGAKEERER RQSRLVQYL VETMHMHNT 
      YAFGYFVCE ALNFVNVMV NIFMTDRFL GGAFLNYGT 
      DVINFSNMN QENRTDPMV AVFPRVTKC TFHKFGASG 
      TIQKHDALC VLALNILNE KIYIFLWFW FIILAVLSG 
      LAIVYSAAV VLLPSTREM ILKRRFRFG APNAVDTII 
      RKTQVGDFL LLHLLGQNM NLMVFGEIL DEFVRRLNF 
      GSNCNLPSA PSTLEMSPI YPEIEKYGK ETET
    CDS sequence
    • >TC011709 RA
      atgagcgtc ttcggcatg gtttcggcc gtagcgggc 
      tttatcaaa gtccgctac ctcatcgac aaggccatg 
      atcgacaac atggtcttc cgggcccat tacagggtc 
      acctccgcc atcctcttc gtctgttgc atcatcgta 
      acagccaac aacctcatt gggtacccc atccagtgc 
      atcaacgat cgcggggtc ccaggccac gtgatcaac 
      acctactgc tggataacc tacactttt acccttcca 
      cacgaacag ggaaaatac atcggatcg gaggtagca 
      catcccggg ttgggcaac gacaaccag gagaaacgc 
      taccatagc tactaccaa tgggtgccc tttgtactg 
      tttttccaa ggagtgttg ttctatatg ccgcactgg 
      atttggaaa atgtgggaa aatgacaag attcgcatg 
      atttcggaa gggatgagg ggcgccctt gtgggggcc 
      aaggaggag cgggagagg aggcaatcg aggctggtg 
      caatatttg gtcgagacg atgcatatg cataacacc 
      tatgcgttt gggtacttc gtctgcgaa gctctgaac 
      ttcgtcaat gtgatggtg aacatattc atgacggac 
      cgctttttg ggcggcgcc ttcctcaac tacggcacc 
      gacgtcatc aacttctcc aacatgaac caagagaac 
      cgaaccgac ccaatggtc gccgttttc ccgcgcgtc 
      accaaatgc accttccac aagttcggt gcctccggc 
      actatccag aaacacgac gctctctgc gtcctcgcc 
      ttgaacatt ctcaacgag aaaatctac attttcctc 
      tggttttgg ttcatcatt ctggccgtg ctgtccggc 
      ctggcgatc gtttattcc gccgcggtt gtgcttctg 
      ccgagcacc agagaaatg atcctgaaa cggcggttc 
      cgctttggc gccccgaac gcagtcgac accataata 
      agaaaaacg caagtgggc gacttcctg ctgctgcac 
      cttttgggg cagaacatg aacctgatg gtgtttggg 
      gagattttg gacgagttc gtgcgccgc ttgaatttc 
      ggctcgaac tgcaacctg ccctcggcg cccagcact 
      ttagaaatg agcccgatt taccccgag atcgagaaa 
      tacggaaaa gagactgaa acgtga
    mRNA sequence
    • >TC011709 RA
      cggcttaac acaacgcca aaaacgcaa atccggggc 
      ccggaaatg ccattttcc gggcggttt tcgcccccg 
      gatttgcgc ccgccgcca ctggtctgg ggcatgcag 
      cgctagacc tgcatgcat tcttcatct tgtgaacaa 
      agctccagg ctttggagg acggaagat acgggtttg 
      tgcgagttg gagaaggat gggggaccc ccctcttgg 
      tgattattt catgacacg aagaataca agcaaccag 
      ttgagagcg taccgtcgg gcaaaggac tcccgaccc 
      caaaatgac accaaaaca gtgatcaaa agcagttaa 
      aagtgccaa aatcgccaa gtgccaagt catttatcg 
      tcaaattct gagctaaca cggaagagc cttcaaaat 
      gagcgtctt cggcatggt ttcggccgt agcgggctt 
      tatcaaagt ccgctacct catcgacaa ggccatgat 
      cgacaacat ggtcttccg ggcccatta cagggtcac 
      ctccgccat cctcttcgt ctgttgcat catcgtaac 
      agccaacaa cctcattgg gtaccccat ccagtgcat 
      caacgatcg cggggtccc aggccacgt gatcaacac 
      ctactgctg gataaccta cacttttac ccttccaca 
      cgaacaggg aaaatacat cggatcgga ggtagcaca 
      tcccgggtt gggcaacga caaccagga gaaacgcta 
      ccatagcta ctaccaatg ggtgccctt tgtactgtt 
      tttccaagg agtgttgtt ctatatgcc gcactggat 
      ttggaaaat gtgggaaaa tgacaagat tcgcatgat 
      ttcggaagg gatgagggg cgcccttgt gggggccaa 
      ggaggagcg ggagaggag gcaatcgag gctggtgca 
      atatttggt cgagacgat gcatatgca taacaccta 
      tgcgtttgg gtacttcgt ctgcgaagc tctgaactt 
      cgtcaatgt gatggtgaa catattcat gacggaccg 
      ctttttggg cggcgcctt cctcaacta cggcaccga 
      cgtcatcaa cttctccaa catgaacca agagaaccg 
      aaccgaccc aatggtcgc cgttttccc gcgcgtcac 
      caaatgcac cttccacaa gttcggtgc ctccggcac 
      tatccagaa acacgacgc tctctgcgt cctcgcctt 
      gaacattct caacgagaa aatctacat tttcctctg 
      gttttggtt catcattct ggccgtgct gtccggcct 
      ggcgatcgt ttattccgc cgcggttgt gcttctgcc 
      gagcaccag agaaatgat cctgaaacg gcggttccg 
      ctttggcgc cccgaacgc agtcgacac cataataag 
      aaaaacgca agtgggcga cttcctgct gctgcacct 
      tttggggca gaacatgaa cctgatggt gtttgggga 
      gattttgga cgagttcgt gcgccgctt gaatttcgg 
      ctcgaactg caacctgcc ctcggcgcc cagcacttt 
      agaaatgag cccgattta ccccgagat cgagaaata 
      cggaaaaga gactgaaac gtgaagatc tcttcgaga 
      atttttttt ctaatttta ctttgtgat tatttaat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY