Status
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Gene information
General information
TC030659 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: 9131914..9132903
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
    TC030659
    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_02610

    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)

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature partially not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    larval musculature potentially partiallydegenerated - Penetrance (percentage of animals/eggs on slide): less than 30%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): less than 30%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    larva constricted - 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%
    thorax not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    Comment: about 30%
    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    abdomen not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    Comment: about 30%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC030659 RA
      MMKFCANLS FMFTEQPFL ERYRLAKEA GFRAVETGF 
      PFGFTEKQV VDAKNGANI QQVLINTYT GDVTKGELG 
      FAAIPGKEQ EFKDSIQKT ITYAKSLGA SKIHIMAGK 
      VADVTDANH SVYETNLKY ATKLLEQEN IIGLIEPIN 
      KYSVPNYYL NCYDRALSV VKKINSPNL RIMLDVFHL 
      QHIRGNITN SIKDLGGYI GHVQIAQVP NRNEPDTPG 
      ELNYVYVLE TLKSLGYND WVGLEYKPL EDTNKGLKW 
      VKSLGYSL
    CDS sequence
    • >TC030659 RA
      atgatgaag ttctgtgcc aatttgtcc ttcatgttc 
      acggagcag cccttcttg gagcgctac cgcttggcc 
      aaagaggcc ggttttcgg gccgttgag accggcttt 
      ccttttggt ttcacggaa aagcaagtc gttgatgca 
      aaaaacggc gctaacatc caacaagtc ctcattaac 
      acgtacacc ggcgatgta acgaagggc gaactcggt 
      tttgcggca attcccggc aaagaacag gaatttaaa 
      gacagcatt cagaaaacc atcacttat gcgaaaagc 
      ctgggggct tccaaaatc cacatcatg gccgggaaa 
      gtcgccgat gtgactgac gccaatcat tcggtttac 
      gaaaccaat ttaaaatat gcaaccaag ttgttggag 
      caggagaat ataattggg ttgattgag ccaattaat 
      aaatattcg gtccccaat tattacctc aattgttac 
      gacagagct ttgagtgtg gtgaaaaag atcaacagt 
      ccgaatttg agaatcatg ttggatgtt tttcatttg 
      caacacatc agggggaat attaccaat agtatcaag 
      gatttaggg gggtatatc gggcatgtg caaatcgca 
      caagtgcct aatagaaac gagcctgat actccaggc 
      gaattaaac tatgtttat gtgttggaa accttgaag 
      tctttgggg tacaatgac tgggtcggg ttggagtac 
      aaaccactt gaggacacc aacaagggg ctcaaatgg 
      gtcaagagt cttgggtac agtctgtaa
    mRNA sequence
    • >TC030659 RA
      actcgacaa aaagtactt ttataattg aaaaataat 
      aattcgagt tatgatgaa gttctgtgc caatttgtc 
      cttcatgtt cacggagca gcccttctt ggagcgcta 
      ccgcttggc caaagaggc cggttttcg ggccgttga 
      gaccggctt tccttttgg tttcacgga aaagcaagt 
      cgttgatgc aaaaaacgg cgctaacat ccaacaagt 
      cctcattaa cacgtacac cggcgatgt aacgaaggg 
      cgaactcgg ttttgcggc aattcccgg caaagaaca 
      ggaatttaa agacagcat tcagaaaac catcactta 
      tgcgaaaag cctgggggc ttccaaaat ccacatcat 
      ggccgggaa agtcgccga tgtgactga cgccaatca 
      ttcggttta cgaaaccaa tttaaaata tgcaaccaa 
      gttgttgga gcaggagaa tataattgg gttgattga 
      gccaattaa taaatattc ggtccccaa ttattacct 
      caattgtta cgacagagc tttgagtgt ggtgaaaaa 
      gatcaacag tccgaattt gagaatcat gttggatgt 
      ttttcattt gcaacacat cagggggaa tattaccaa 
      tagtatcaa ggatttagg ggggtatat cgggcatgt 
      gcaaatcgc acaagtgcc taatagaaa cgagcctga 
      tactccagg cgaattaaa ctatgttta tgtgttgga 
      aaccttgaa gtctttggg gtacaatga ctgggtcgg 
      gttggagta caaaccact tgaggacac caacaaggg 
      gctcaaatg ggtcaagag tcttgggta cagtctgta 
      attggtgtc aattgggga aataaaggc tgtttttac 
      ttaataatt taatttaca aaat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY