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Gene information
General information
TC015439 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_007421.3: 1033514..1041597
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
    TC015439
    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_05817

    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: 60.0% (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: 2 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 3 (9 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    larval musculature decreased - 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%
    remarks: muscle pattern potentially obscured by segmentation defect,
    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: -1.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: -1.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC015439 RA
      MPNLVSDEI IPASVQLRV GDPSVLCYF LARVDYSPP 
      ESRNENRKK VAKFEGKIF SAVNNFFSS SPLVNQIKD 
      LMTRQTTQT DPEDVVIAT ETKMEETKP PTRLSARHS 
      EVSKSQMKE FREAFRLFD KDGDGSITK EELGRVMRS 
      LGQFARTEE LQQMLQEVD VDGDGNVSF EEFVDIAWS 
      AGAGGDPEH VLSREEEEK ELRDAFRVF DKHNRGYIT 
      ASDLRAVLQ CLGEDLSEE EIEDMIKEV DVDGDGRID 
      FYEFVNALG EPGTEDSYD DEDDEIIGY
    CDS sequence
    • >TC015439 RA
      atgccaaat ctagttagc gatgagatt attcctgcc 
      agtgtgcag ttaagggtg ggcgatcca agtgtgctt 
      tgttatttt ctggcaaga gttgattat tcccctcca 
      gaaagtcgt aacgaaaat cggaaaaaa gtggcgaag 
      tttgaaggc aaaatattt tcagcggtg aataatttt 
      ttttcgtct tctccttta gtcaaccaa ataaaagac 
      ttgatgacc cgacaaacc acccagacc gaccctgaa 
      gacgtcgtc atcgccacc gaaacgaag atggaagaa 
      accaaaccg ccaactcgg ctctcggca cgacactcc 
      gaagtctcc aagagccaa atgaaggag tttcgggaa 
      gcgttccgg ctcttcgac aaggacggt gacggaagc 
      atcaccaaa gaggagctg ggacgtgtt atgcgttcg 
      ttaggccaa ttcgcccga accgaagaa ttgcaacaa 
      atgctccag gaggtggat gttgacggt gacggaaat 
      gtcagtttt gaggaattt gttgacatt gcttggtca 
      gcgggcgct ggaggtgac cccgaacat gtcctctcg 
      agggaggag gaagagaag gaattgagg gacgcgttt 
      agagtgttt gataaacat aatagaggg tatattacc 
      gcctccgat ttgagggcg gttttgcaa tgtcttggg 
      gaggacctt tcagaagaa gagattgaa gatatgatt 
      aaagaagtc gatgttgac ggtgacggc cgtatagat 
      ttctacgaa tttgtcaat gctctggga gagccgggc 
      accgaagac agttacgac gacgaagac gatgaaata 
      atcggttat taa
    mRNA sequence
    • >TC015439 RA
      cctaacgcc ttcatgaac tcgtcgaaa ttttcgcta 
      gaagcgagc ttatatttc ttgccaaga tgtgcgtcg 
      accatttcg gcactttcg ttattacga atgactgta 
      aaaaagact agaaataaa aagaatcgc gcttggatt 
      ttggccatg gtcggattt ttttaaatt ttttgaatt 
      aggtacttt aaacttacg caccctttt acgaaggcg 
      tctattacg cgaataact tcaattctc ttctgaaca 
      cttgaatga gagtgattt aaaacgggt ggaatgccg 
      gaggcgatt ctagcacta gtgtcgtat gtacagagt 
      gacgaagaa acatgggcg tacgtatgg tgtgatggt 
      aagggcatg cgctgtggc cacagaggc ggcggtaaa 
      gatttttcc cccgttgtt tgggagaaa agagcgacg 
      aacttaagg ggggatttt atttttttt atgagttta 
      aaactgcat tgtgtgtat tatttattg tttgagcac 
      aattattta ttaaacaaa cttaccttc aaggtcggc 
      tttcctcat aatttcggc ttgaaggac cactgaaac 
      aaatgacag ggatgccaa atctagtta gcgatgaga 
      ttattcctg ccagtgtgc agttaaggg tgggcgatc 
      caagtgtgc tttgttatt ttctggcaa gagttgatt 
      attcccctc cagaaagtc gtaacgaaa atcggaaaa 
      aagtggcga agtttgaag gcaaaatat tttcagcgg 
      tgaataatt ttttttcgt cttctcctt tagtcaacc 
      aaataaaag acttgatga cccgacaaa ccacccaga 
      ccgaccctg aagacgtcg tcatcgcca ccgaaacga 
      agatggaag aaaccaaac cgccaactc ggctctcgg 
      cacgacact ccgaagtct ccaagagcc aaatgaagg 
      agtttcggg aagcgttcc ggctcttcg acaaggacg 
      gtgacggaa gcatcacca aagaggagc tgggacgtg 
      ttatgcgtt cgttaggcc aattcgccc gaaccgaag 
      aattgcaac aaatgctcc aggaggtgg atgttgacg 
      gtgacggaa atgtcagtt ttgaggaat ttgttgaca 
      ttgcttggt cagcgggcg ctggaggtg accccgaac 
      atgtcctct cgagggagg aggaagaga aggaattga 
      gggacgcgt ttagagtgt ttgataaac ataatagag 
      ggtatatta ccgcctccg atttgaggg cggttttgc 
      aatgtcttg gggaggacc tttcagaag aagagattg 
      aagatatga ttaaagaag tcgatgttg acggtgacg 
      gccgtatag atttctacg aatttgtca atgctctgg 
      gagagccgg gcaccgaag acagttacg acgacgaag 
      acgatgaaa taatcggtt attaatttc taagtgtta 
      tatcaatgt atgaatcat atcgaattt ttacatctg 
      gatgtgatg ttttctctg aatttgctg tttgcaata 
      atcgtctat taagggggt ccatagatg tcgaaactt 
      cttgacggg tatatggta gccaattct acaagcttt 
      acaattggg tgatacatt tcaaatttt tgtgtttat 
      ttatttgtc gaattaatg cttattata ttgtttgaa 
      ttacatgaa ataaaacta ttcgaaaca a
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY