Status
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Gene information
General information
TC015408 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: 500481..502204
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
    TC015408
    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_10153

    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)

    Fertility
    previtellogenic egg chamber not present - Number of animals showing the phenotype: 3

    vitellogenic egg chamber degenerated - Number of animals showing the phenotype: 2

    mature egg not present - Number of animals showing the phenotype: 3
    vitellarium size decreased - Number of animals showing the phenotype: 2

    vitellarium potentially degenerated - Number of animals showing the phenotype: 1

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

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC015408 RA
      MSKIRVSAP GKVILHGEH SVVYDKLAV AASLGLRTR 
      LEYCEEGAG LRVEFGDLG LTQCYNFKD VHQLLSTQI 
      PLTQPTAYY NLTHPELLD HDKITEIVE KFVDLNRHE 
      PKQRQALVS FFYLFFAIV GSTDSNLSD GFKLAVRSD 
      LTVGAGTGS SASFAVAIA AFLLHFVKV KKFKSKNLY 
      KSLDLNVDN LQNFDTTEL DLVSKWAFQ SERIIHGTP 
      SGVDNTICT FGGLVSFRK GTRPQKITL SSKITLILI 
      DTNTPRDTK TLVGKVATK RAKYRPIID AILDAMDHT 
      TISALDYFQ KMETSDVSG ETYDALGEL ADLNQNLLR 
      CLGVSHPKL DQACEILAT FGLHCKLTG AGGGGCAIC 
      VVPPSVKGV EKAITELKL NGFGAVLTD LGGCGVRVD
    CDS sequence
    • >TC015408 RA
      atgtccaaa attcgtgtg tccgccccc ggtaaagtg 
      attttacac ggtgaacat tcagtggtt tatgataag 
      ttggcggtg gcggccagt ttgggtcta aggacgcga 
      ttggagtat tgcgaggag ggggcgggg ctaagggtg 
      gagtttggc gaccttggg ctcacgcaa tgttacaac 
      ttcaaggac gtccaccaa cttctcagc acacaaata 
      ccattgacc caacccaca gcctactac aacctgact 
      catcccgaa cttttggat catgataaa atcaccgaa 
      atcgtcgaa aagttcgtc gatttgaat cgacacgaa 
      cccaaacaa cgccaggct ttggtttcg tttttttat 
      ttatttttt gcaattgtg ggaagtacc gattcaaat 
      ttgagtgat gggttcaag ttggctgtg cggtccgat 
      ttgacagtt ggggccgga accggaagt tcggcctcg 
      ttcgcagtc gccatagcg gcgtttttg ctccatttt 
      gtcaaagtc aaaaaattc aaatccaaa aatttgtac 
      aaaagtctt gatctaaat gtggataat ttgcaaaat 
      tttgacaca acggagctg gatttggtc tcgaagtgg 
      gcgtttcag agcgagagg atcatccac gggacaccg 
      tcaggtgtt gacaacaca atttgcact tttggcggt 
      ttagtgtca ttccgaaaa ggcacaagg ccccaaaaa 
      atcaccctg tcgtcaaaa atcaccctg atccttatc 
      gacaccaac acaccacgt gacactaaa accctggtc 
      ggtaaagta gcgaccaaa cgggcgaaa taccggccg 
      ataatcgac gccattttg gacgccatg gaccacaca 
      acaatcagc gcacttgat tatttccaa aaaatggaa 
      acaagtgac gtttcgggg gagacttat gacgcatta 
      ggggaactc gccgacttg aatcaaaat ctcttgcga 
      tgtttgggt gtttcacac ccaaaattg gaccaagct 
      tgcgagatt ttggccact tttggacta cactgcaaa 
      ttgacaggg gcggggggt ggggggtgc gccatctgt 
      gtggtgccg ccctctgtc aaaggggtg gaaaaggct 
      ataaccgaa ctgaaattg aacggtttc ggggcggtt 
      ttaaccgat ttaggcggt tgtggagta agggttgat 
      taa
    mRNA sequence
    • >TC015408 RA
      ccttcagga agtcattga cgaatccga cggctgcgg 
      cggcaaatt ctcgtgcgt catcgtctc cgacaagtt 
      ccgtggcaa gccactact ccaaagaca ccggctggt 
      gaattcagt gcttcaaga agaactcaa atcaattca 
      cgccttctc gcaaaaaac ctacacccc agaacagtg 
      ggaacagca ataatgtcc aaaattcgt gtgtccgcc 
      cccggtaaa gtgatttta cacggtgaa cattcagtg 
      gtttatgat aagttggcg gtggcggcc agtttgggt 
      ctaaggacg cgattggag tattgcgag gagggggcg 
      gggctaagg gtggagttt ggcgacctt gggctcacg 
      caatgttac aacttcaag gacgtccac caacttctc 
      agcacacaa ataccattg acccaaccc acagcctac 
      tacaacctg actcatccc gaacttttg gatcatgat 
      aaaatcacc gaaatcgtc gaaaagttc gtcgatttg 
      aatcgacac gaacccaaa caacgccag gctttggtt 
      tcgtttttt tatttattt tttgcaatt gtgggaagt 
      accgattca aatttgagt gatgggttc aagttggct 
      gtgcggtcc gatttgaca gttggggcc ggaaccgga 
      agttcggcc tcgttcgca gtcgccata gcggcgttt 
      ttgctccat tttgtcaaa gtcaaaaaa ttcaaatcc 
      aaaaatttg tacaaaagt cttgatcta aatgtggat 
      aatttgcaa aattttgac acaacggag ctggatttg 
      gtctcgaag tgggcgttt cagagcgag aggatcatc 
      cacgggaca ccgtcaggt gttgacaac acaatttgc 
      acttttggc ggtttagtg tcattccga aaaggcaca 
      aggccccaa aaaatcacc ctgtcgtca aaaatcacc 
      ctgatcctt atcgacacc aacacacca cgtgacact 
      aaaaccctg gtcggtaaa gtagcgacc aaacgggcg 
      aaataccgg ccgataatc gacgccatt ttggacgcc 
      atggaccac acaacaatc agcgcactt gattatttc 
      caaaaaatg gaaacaagt gacgtttcg ggggagact 
      tatgacgca ttaggggaa ctcgccgac ttgaatcaa 
      aatctcttg cgatgtttg ggtgtttca cacccaaaa 
      ttggaccaa gcttgcgag attttggcc acttttgga 
      ctacactgc aaattgaca ggggcgggg ggtgggggg 
      tgcgccatc tgtgtggtg ccgccctct gtcaaaggg 
      gtggaaaag gctataacc gaactgaaa ttgaacggt 
      ttcggggcg gttttaacc gatttaggc ggttgtgga 
      gtaagggtt gattaataa agtgttaag aaagaaatg 
      ttttttat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY