Status
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Gene information
General information
TC011311 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_007425.3: 3154584..3156168
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
    TC011311
    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_05011

    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: 10.0% (includes death as pupa, adult)

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


    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 20 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): less than 30%

    embryo/egg with embryonic tissue, no cuticle, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): 50% - 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: < 20
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    gut remaining - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    Comment: potentially just hindgut
    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: 40.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 5 (11 dpi)
    Days post injection


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


    larva lethality late (L7) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection


    pupal molt not fulfilled (died as prepupa) - Number of animals showing the phenotype: 3 (16 dpi)
    Days post injection



    larva lethality late (L7) - Number of animals showing the phenotype: 2 (19 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011311 RA
      MRLDNMLIA EGVAGPEKG GGAGAAASG SAAAQAGQP 
      DNAIEHSDY RAKLAQIRQ IYHQELEKY EQACNEFTT 
      HVMNLLREQ SRTRPITPK EIERMVQII HKKFSSIQM 
      QLKQSTCEA VMILRSRFL DARRKRRNF SKQASEILN 
      EYFYSHLSN PYPSEEAKE ELARKCGIT VSQVSNWFG 
      NKRIRYKKN IGKAQEEAN LYAAKKAAG ASPYSGTPT 
      PMMSPAPPQ DSMGYSMGS AYDQSSAYD ASSCGYDPM 
      HAQELSP
    CDS sequence
    • >TC011311 RA
      atgcggctc gacaacatg ctgatcgcc gagggggtg 
      gcgggcccc gagaagggc ggcggcgcg ggggccgcc 
      gcctcgggc tccgccgcc gcccaggcc ggccagccc 
      gacaacgcc atcgagcac agcgactac agggccaaa 
      ctcgcccaa atccgccaa atctaccac caagaactg 
      gaaaagtac gaacaggcg tgcaatgag ttcaccaca 
      cacgttatg aacttgctg cgggagcag tcccggact 
      cgcccaatc accccgaag gaaatcgag cggatggtg 
      caaatcata cacaagaaa ttctcctcg attcagatg 
      cagctgaaa cagtcgact tgcgaggct gttatgatc 
      ctcagatcg cggtttttg gacgccaga aggaaacgc 
      cggaatttc agcaagcag gcgtcggaa attctaaac 
      gagtatttt tactcgcat ttgtctaat ccctacccc 
      agtgaggag gcgaaggaa gagttggct aggaaatgc 
      gggatcaca gtgagccag gtgtcgaac tggttcggg 
      aacaaacga atcaggtac aagaagaac atcgggaag 
      gcgcaggaa gaggccaat ttgtacgcg gcgaagaag 
      gcggcaggg gcgtcgccc tacagcggc accccgacc 
      cccatgatg tccccagcg cccccgcag gactccatg 
      ggctactcc atggggtcg gcctacgac cagagctca 
      gcctatgac gccagtagc tgtggttac gacccaatg 
      cacgcacag gaactgtcg ccctaa
    mRNA sequence
    • >TC011311 RA
      tacgtatgc tgtcaagcg cgtccattt cctagtgcc 
      gtttgcgtg cccccatgg acgaccccg gcagaatga 
      tgggccaca ccggcggcg gcctgatgc cccctcagc 
      cgtacatga acgcccagg acgcgcccg cgggcggcg 
      agaacgagc cccgcaagc aggacatcg gtgagatcc 
      tccagcaga tcatgaaca tcaccgacc agagcctcg 
      acgaggccc aagcgcgca aacacaccc tcaactgcc 
      accgcatga agccggccc tgttctccg tgctgtgcg 
      aaatcaagg agaagacgg tgctcagcc tgcggaaca 
      cgcnnnnnn nnnnnnnnn nnnnnnnnn nnnnnnnnn 
      nnnnnnnnn nnnnnnnnn nnnnnnnnn atgcggctc 
      gacaacatg ctgatcgcc gagggggtg gcgggcccc 
      gagaagggc ggcggcgcg ggggccgcc gcctcgggc 
      tccgccgcc gcccaggcc ggccagccc gacaacgcc 
      atcgagcac agcgactac agggccaaa ctcgcccaa 
      atccgccaa atctaccac caagaactg gaaaagtac 
      gaacaggcg tgcaatgag ttcaccaca cacgttatg 
      aacttgctg cgggagcag tcccggact cgcccaatc 
      accccgaag gaaatcgag cggatggtg caaatcata 
      cacaagaaa ttctcctcg attcagatg cagctgaaa 
      cagtcgact tgcgaggct gttatgatc ctcagatcg 
      cggtttttg gacgccaga aggaaacgc cggaatttc 
      agcaagcag gcgtcggaa attctaaac gagtatttt 
      tactcgcat ttgtctaat ccctacccc agtgaggag 
      gcgaaggaa gagttggct aggaaatgc gggatcaca 
      gtgagccag gtgtcgaac tggttcggg aacaaacga 
      atcaggtac aagaagaac atcgggaag gcgcaggaa 
      gaggccaat ttgtacgcg gcgaagaag gcggcaggg 
      gcgtcgccc tacagcggc accccgacc cccatgatg 
      tccccagcg cccccgcag gactccatg ggctactcc 
      atggggtcg gcctacgac cagagctca gcctatgac 
      gccagtagc tgtggttac gacccaatg cacgcacag 
      gaactgtcg ccctaatca aaccctagc ttaatttta 
      aggaaatac agttgtata ctaacccat gtataccga 
      attttgtat cgtgtacag tgtgtttct gggttcaat 
      tgcttcaag ttttacttt tctgatagt ataggacgt 
      acttgcaat atattttta ggttgattg ttttaggag 
      ttaaggcga gtttttctt cagtatttt ttgtatatt 
      tacttattt ttatcgata aggagcagc tgggtgaga 
      gaactttgc tttaacgcc gaggttttt ccatcgaaa 
      atgaaatta cagtgctta ctatttaaa taaataact 
      gtagtaaca cgtggatca ttttttcaa catacatga 
      aataatcac agaaaatcc tacatggaa ataaagggc 
      gtagagaga ctcacgtga ataaaagcc ccataaaaa 
      t
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY