Status
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Gene information
General information
TC008588 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_007417.3: 1622118..1623856
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
    TC008588
    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_04523

    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 (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (9 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

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


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008588 RA
      MTEDHNKDE TNFNLLQDN QWKPNGHEI KAYKRRWII 
      LTIFIIYGA VNSYQWIEY SIVNNIITR YYNVTPVMV 
      DWTSIIYMA LYAPLVIPA SYILDKYGL RAAGLIGGL 
      GTALGTSIK VFSIGRESF WIVLLGQAV VSASQLLIL 
      CLPPRIAAV WFKPNEVST ACSLGVFGN QLGVAIGFV 
      LSPMIVQNR ENVEEIGHD LKILCWGLT AVILPTAIA 
      IIFYFPKQP PKPPSITQV EERNRTENF STKSFFQSI 
      LVLLKNVPF VIHVVAFGV NIGVFSAVG TLLNQLVLR 
      YFKHLPDAE AFTGRAGLV MIVVGMMGS ILFGIFLDK 
      THKYKETTV FAYFMSSLS VVGFMFALE MKSKILVYI 
      AIGVVGLFT NAYAPVGFE FAMELTYPS SEGTATGLL 
      MAPSQVLGV VFALMLGQL NVLIGPFWS LASQVLLLI 
      VGAIITCFV PNKLKRQEA FKRRINNDI LLKEIKR
    CDS sequence
    • >TC008588 RA
      atgacggaa gaccataat aaggatgaa acaaatttc 
      aatttactc caagataat cagtggaaa ccaaacggt 
      cacgaaatc aaagcttac aaacgtaga tggataatt 
      ttaacaatt ttcataatt tacggtgct gtaaattcg 
      taccaatgg atcgaatat tcaattgtc aacaacata 
      attacaaga tattacaac gttactcct gtgatggtg 
      gactggaca tcaatcatt tacatggcc ctctatgca 
      cctttagtc ataccagct tcgtacatt ttggataaa 
      tatggttta cgtgccgct ggactaatt ggaggacta 
      ggaacagca ttaggaacc tcaattaaa gtattttca 
      atcggacgt gaatccttc tggattgtc cttctaggt 
      caagcagtt gtatcagca tcacaactt ttaattcta 
      tgtcttcca ccaagaata gcagctgtt tggttcaaa 
      ccgaacgaa gtatcaaca gcttgttca cttggagtt 
      ttcggaaat caacttggt gttgccatt ggatttgtg 
      ctatcaccc atgattgtg caaaatcgt gaaaatgtg 
      gaagaaatt ggacatgac ttgaaaata ttgtgctgg 
      ggtcttaca gctgtgatt ttaccaaca gcgattgca 
      atcatattt tattttcct aagcagcct ccaaagcca 
      ccaagcatt acacaagtg gaagaaagg aacagaaca 
      gagaatttt tcaaccaag tcatttttt caatctatt 
      ttagttcta ctgaaaaat gtgcccttc gtaattcac 
      gtggtggcg tttggtgtt aacattggt gttttttca 
      gcagttggt actcttctc aatcaactt gtattgcgt 
      tattttaaa cacttgcca gatgctgaa gcatttacc 
      ggtagagct ggtttagtg atgattgtc gttggaatg 
      atgggatct atcctattt ggaattttt cttgataaa 
      acacataaa tataaagaa acaactgtt ttcgcttac 
      tttatgtcc tcactaagc gtagttggc ttcatgttt 
      gctttagaa atgaagtca aaaattttg gtttatatt 
      gcaatagga gtggttggt ttatttaca aatgcatac 
      gcaccagta ggttttgaa tttgccatg gagttaact 
      tatccttct tctgaaggt actgccaca ggattactt 
      atggcacca tcacaagtc ttaggagtt gtttttgca 
      ttaatgttg ggtcagctt aacgtttta attgggccg 
      ttttggtct ctagccagt caagttttg ctgctaata 
      gttggtgct ataattact tgtttcgta cctaataaa 
      ttaaaaaga caggaagct ttcaagcgt aggataaat 
      aatgatata ttgttaaaa gaaattaaa cgttga
    mRNA sequence
    • >TC008588 RA
      aaacgcttt aaaaagtaa aaggtttcg tgcaatgta 
      ttacgttaa taataataa tgacggaag accataata 
      aggatgaaa caaatttca atttactcc aagataatc 
      agtggaaac caaacggtc acgaaatca aagcttaca 
      aacgtagat ggataattt taacaattt tcataattt 
      acggtgctg taaattcgt accaatgga tcgaatatt 
      caattgtca acaacataa ttacaagat attacaacg 
      ttactcctg tgatggtgg actggacat caatcattt 
      acatggccc tctatgcac ctttagtca taccagctt 
      cgtacattt tggataaat atggtttac gtgccgctg 
      gactaattg gaggactag gaacagcat taggaacct 
      caattaaag tattttcaa tcggacgtg aatccttct 
      ggattgtcc ttctaggtc aagcagttg tatcagcat 
      cacaacttt taattctat gtcttccac caagaatag 
      cagctgttt ggttcaaac cgaacgaag tatcaacag 
      cttgttcac ttggagttt tcggaaatc aacttggtg 
      ttgccattg gatttgtgc tatcaccca tgattgtgc 
      aaaatcgtg aaaatgtgg aagaaattg gacatgact 
      tgaaaatat tgtgctggg gtcttacag ctgtgattt 
      taccaacag cgattgcaa tcatatttt attttccta 
      agcagcctc caaagccac caagcatta cacaagtgg 
      aagaaagga acagaacag agaattttt caaccaagt 
      cattttttc aatctattt tagttctac tgaaaaatg 
      tgcccttcg taattcacg tggtggcgt ttggtgtta 
      acattggtg ttttttcag cagttggta ctcttctca 
      atcaacttg tattgcgtt attttaaac acttgccag 
      atgctgaag catttaccg gtagagctg gtttagtga 
      tgattgtcg ttggaatga tgggatcta tcctatttg 
      gaatttttc ttgataaaa cacataaat ataaagaaa 
      caactgttt tcgcttact ttatgtcct cactaagcg 
      tagttggct tcatgtttg ctttagaaa tgaagtcaa 
      aaattttgg tttatattg caataggag tggttggtt 
      tatttacaa atgcatacg caccagtag gttttgaat 
      ttgccatgg agttaactt atccttctt ctgaaggta 
      ctgccacag gattactta tggcaccat cacaagtct 
      taggagttg tttttgcat taatgttgg gtcagctta 
      acgttttaa ttgggccgt tttggtctc tagccagtc 
      aagttttgc tgctaatag ttggtgcta taattactt 
      gtttcgtac ctaataaat taaaaagac aggaagctt 
      tcaagcgta ggataaata atgatatat tgttaaaag 
      aaattaaac gttgaaaat aattaatac atgattttt 
      ctctac
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY