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Gene information
General information
TC006255 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_007423.3: 5884644..5887168
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
    TC006255
    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
    {{ goGene }}
    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
    If you paste here the relevant section of the reference it is for us a great help to review your annotation. The quotation may be also be displayed to the users of iBeetle-Base.
    Name
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    Email
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    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01021

    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)

    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: 4 (9 dpi)
    Days post injection


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

    affected eggs/embryos/larvae - 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
    labrum not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): less than 30%
    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: 22.22% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006255 RA
      MTKLFLVLL SLNLVFASE SVQNFKNGN KVFSADVYK 
      EIAKNEKDD FIVSPFSAQ TILALAQNG AKGETATEI 
      RSSLRLPSS RRQINAVFK SLLQKLRKT EGCTFQTAN 
      KIYIKDKYP IKPGFNATA TEIFHSSTE NIDFAQNTI 
      AAEKINNWV SERTNNTIK DLIEPQKLN QDTIAVLIN 
      ALYFSGAWK KPFKATQTQ KRAFKTPTD ELEVDMMRK 
      SDFLGYLES GKLDATFLQ MPFRGGKDA QMVLVLPNE 
      KGGITDLEA QLEQVYRTR NFTQEYVEV TIPKFKIET 
      SVDFKGVLK SLGVKKAFR KADFSDLAG EKGEIRITD 
      VLQKAFIGV DEDGVVASA ATAVIFHPK SLMQGMGSK 
      KTFTADHPF LFYIKINGV VIFTGRVVS PEV
    CDS sequence
    • >TC006255 RA
      atgacaaaa ctattcctc gtgttactt tcgttaaat 
      ttggtgttt gcaagcgaa agtgtgcaa aacttcaaa 
      aacggcaac aaagtattt tctgcagat gtgtacaag 
      gaaatcgca aaaaatgag aaagacgac ttcatagtg 
      tcccccttt tcggcgcaa acaatcctc gcgttggcc 
      caaaacggc gctaaaggc gagaccgcc acagaaatc 
      cgttcatct ctccgcctt ccaagttcc cgccgccaa 
      ataaacgca gtttttaaa tcactttta caaaaactg 
      cgaaaaacc gaaggttgc accttccaa acggccaac 
      aagatctac atcaaggac aaatacccc atcaaaccc 
      ggctttaac gcaaccgcc accgaaatc ttccactcg 
      agcaccgaa aacatcgac tttgcccaa aacacaatc 
      gccgcggaa aaaatcaac aactgggtc tccgaacgc 
      accaacaac accatcaaa gacctcatc gagccccaa 
      aagctcaac caggacacg atcgccgtg ctcataaac 
      gccctttac ttctccggc gcttggaag aagcccttc 
      aaagcgaca caaacccaa aaacgggcg tttaaaacc 
      cccactgac gagctcgag gtggacatg atgcggaaa 
      agcgacttc ttggggtac ttggagagt gggaaactg 
      gacgccacg ttcctccag atgccgttc cgaggaggg 
      aaggacgcc cagatggtg ctggtcctc ccgaacgaa 
      aaggggggg atcaccgac ttggaggcc caactggaa 
      caggtctac agaacgcgc aatttcacg caggagtac 
      gtcgaagtg acgatcccc aagttcaag attgagaca 
      agtgttgac ttcaaggga gttttgaag agtttgggg 
      gtgaagaag gcgttccga aaggccgat tttagcgac 
      ctggcgggc gagaaaggg gagatccgg atcacggat 
      gttttgcag aaggcgttc attggggtg gatgaggac 
      ggggtggtg gccagtgct gccactgct gtcattttc 
      catccaaag agtctgatg caaggtatg ggcagtaag 
      aagactttc acagccgat catcccttc ctattctac 
      attaagatc aacggtgtt gtcattttt acggggaga 
      gttgtttcg cccgaggtt taa
    mRNA sequence
    • >TC006255 RA
      cgagtacaa ataataagt cgtttattt tctaaaggc 
      agtattcac aaagtgata caaaatgac aaaactatt 
      cctcgtgtt actttcgtt aaatttggt gtttgcaag 
      cgaaagtgt gcaaaactt caaaaacgg caacaaagt 
      attttctgc agatgtgta caaggaaat cgcaaaaaa 
      tgagaaaga cgacttcat agtgtcccc cttttcggc 
      gcaaacaat cctcgcgtt ggcccaaaa cggcgctaa 
      aggcgagac cgccacaga aatccgttc atctctccg 
      ccttccaag ttcccgccg ccaaataaa cgcagtttt 
      taaatcact tttacaaaa actgcgaaa aaccgaagg 
      ttgcacctt ccaaacggc caacaagat ctacatcaa 
      ggacaaata ccccatcaa acccggctt taacgcaac 
      cgccaccga aatcttcca ctcgagcac cgaaaacat 
      cgactttgc ccaaaacac aatcgccgc ggaaaaaat 
      caacaactg ggtctccga acgcaccaa caacaccat 
      caaagacct catcgagcc ccaaaagct caaccagga 
      cacgatcgc cgtgctcat aaacgccct ttacttctc 
      cggcgcttg gaagaagcc cttcaaagc gacacaaac 
      ccaaaaacg ggcgtttaa aacccccac tgacgagct 
      cgaggtgga catgatgcg gaaaagcga cttcttggg 
      gtacttgga gagtgggaa actggacgc cacgttcct 
      ccagatgcc gttccgagg agggaagga cgcccagat 
      ggtgctggt cctcccgaa cgaaaaggg ggggatcac 
      cgacttgga ggcccaact ggaacaggt ctacagaac 
      gcgcaattt cacgcagga gtacgtcga agtgacgat 
      ccccaagtt caagattga gacaagtgt tgacttcaa 
      gggagtttt gaagagttt gggggtgaa gaaggcgtt 
      ccgaaaggc cgattttag cgacctggc gggcgagaa 
      aggggagat ccggatcac ggatgtttt gcagaaggc 
      gttcattgg ggtggatga ggacggggt ggtggccag 
      tgctgccac tgctgtcat tttccatcc aaagagtct 
      gatgcaagg tatgggcag taagaagac tttcacagc 
      cgatcatcc cttcctatt ctacattaa gatcaacgg 
      tgttgtcat ttttacggg gagagttgt ttcgcccga 
      ggtttaatc cgatttttt ctacgtttt attagtatt 
      aatatattt aaataaaat tgttttaat taacgatga 
      ggttttggc ctttttatt gacctgcta gactagatt 
      tgcgtttta ttattgata aaaaagcgt cacagggat 
      tgtgtaaat atgtgatag tgataacaa taacaaata 
      tgatgattc agtgattta cgagaatgt gcggaaaat 
      gtaaacaaa tagagcaat tgagtatgt aactagaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY