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Gene information
General information
TC006712 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: 13208131..13209565
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
    TC006712
    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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    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_04200

    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 (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 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%

    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: < 20
    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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 40.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006712 RA
      MCANLPGFW PPPETPVPS YPSSLLPQS KFLRQSFYF 
      KRDTKMKAR PYSCEECGK SFLLKHHLT THARTHTGV 
      RPHVCSHCG KSFTHKHCL NTHLLLHSS ERPFQCGEC 
      KKSFTLKHH LITHSKVHS REKPYICTE CGQAFPVKR 
      HLTTHSKFH AGERPYVCE DCGESFAQK EHLVMHSRF 
      HGSLNSFVC SDCGATFTR KFELVNHGR LHGKQPHSC 
      VICNKEFFQ KRTLLAHMK CHSEQAKCN NLLTYFKSA 
      EQTKLMCSD CGCVFNTSE ALALHVKLH SGEDCVLGA 
      NFTVQNKSK NHTCQYCNK GYSAKHGLQ QHNKKHPNG 
      SCALRSHVC DVCHKGFFQ KNHLLLHQR QHNSTKSGE 
      KL
    CDS sequence
    • >TC006712 RA
      atgtgtgcg aacttgccc ggtttttgg ccgcccccc 
      gaaacccca gtccccagt tacccctcc agtctcctg 
      ccccagagt aagtttttg cggcagtct ttttacttc 
      aaacgcgat actaaaatg aaagcgcgt ccgtattcg 
      tgcgaggag tgcggtaaa tcgttcctt ttgaagcac 
      cacttgacc acacatgcg aggacccac acgggggtg 
      cgcccccat gtgtgcagc cactgtggc aagagcttc 
      acgcataaa cattgtctc aacacgcat ttgctgctg 
      cattcgagc gagcggccg ttccagtgc ggcgagtgc 
      aagaagagc ttcactctg aagcaccac ttgatcacg 
      catagcaaa gtccacagc cgcgaaaag ccctacatt 
      tgcacagag tgtgggcag gcttttcca gtcaaaaga 
      cacctaacc acacatagt aaatttcat gcaggggag 
      aggccctat gtgtgtgag gactgtggg gagtctttc 
      gcccagaag gagcacctg gtcatgcat tcgaggttt 
      cacggatcg ctcaattcg ttcgtttgt agcgattgt 
      ggggcgact ttcacccga aaattcgag ctggtgaac 
      catgggcgc ttgcacggc aaacagccc cacagttgt 
      gtcatttgc aataaagag tttttccaa aaacggacg 
      cttttagcg catatgaag tgccatagt gagcaagcg 
      aaatgcaat aatttattg acttatttc aaatcggcc 
      gagcaaacg aagctgatg tgtagcgac tgtggctgt 
      gtttttaat acgtctgag gctctggca ctgcatgtt 
      aagcttcac tcgggggag gactgtgtt ctgggtgcg 
      aattttacg gtacaaaat aaatcgaaa aatcatacg 
      tgtcagtat tgtaataag ggctacagt gccaagcat 
      gggctacag cagcacaac aagaaacac ccgaatggg 
      agctgtgcc ttaaggtca catgtttgt gacgtttgc 
      cataaaggg ttcttccag aagaaccac ctgttgttg 
      caccaacgc caacataat agcacaaaa agtggcgaa 
      aaactgtaa
    mRNA sequence
    • >TC006712 RA
      gcatcgccg gcccaaaat ggccgtttg acattgtca 
      aacgtcaaa caagagttt aaaaacttg tttattcgg 
      tgtgttgtc cctaaaaac cgcagtttg tgcttaaaa 
      tgtgttaag atgtgtgcg aacttgccc ggtttttgg 
      ccgcccccc gaaacccca gtccccagt tacccctcc 
      agtctcctg ccccagagt aagtttttg cggcagtct 
      ttttacttc aaacgcgat actaaaatg aaagcgcgt 
      ccgtattcg tgcgaggag tgcggtaaa tcgttcctt 
      ttgaagcac cacttgacc acacatgcg aggacccac 
      acgggggtg cgcccccat gtgtgcagc cactgtggc 
      aagagcttc acgcataaa cattgtctc aacacgcat 
      ttgctgctg cattcgagc gagcggccg ttccagtgc 
      ggcgagtgc aagaagagc ttcactctg aagcaccac 
      ttgatcacg catagcaaa gtccacagc cgcgaaaag 
      ccctacatt tgcacagag tgtgggcag gcttttcca 
      gtcaaaaga cacctaacc acacatagt aaatttcat 
      gcaggggag aggccctat gtgtgtgag gactgtggg 
      gagtctttc gcccagaag gagcacctg gtcatgcat 
      tcgaggttt cacggatcg ctcaattcg ttcgtttgt 
      agcgattgt ggggcgact ttcacccga aaattcgag 
      ctggtgaac catgggcgc ttgcacggc aaacagccc 
      cacagttgt gtcatttgc aataaagag tttttccaa 
      aaacggacg cttttagcg catatgaag tgccatagt 
      gagcaagcg aaatgcaat aatttattg acttatttc 
      aaatcggcc gagcaaacg aagctgatg tgtagcgac 
      tgtggctgt gtttttaat acgtctgag gctctggca 
      ctgcatgtt aagcttcac tcgggggag gactgtgtt 
      ctgggtgcg aattttacg gtacaaaat aaatcgaaa 
      aatcatacg tgtcagtat tgtaataag ggctacagt 
      gccaagcat gggctacag cagcacaac aagaaacac 
      ccgaatggg agctgtgcc ttaaggtca catgtttgt 
      gacgtttgc cataaaggg ttcttccag aagaaccac 
      ctgttgttg caccaacgc caacataat agcacaaaa 
      agtggcgaa aaactgtaa ccgtaactg tgattgtct 
      tgtgtaaca tttagctgt gttttatgc tttaattta 
      tgtaacttt gtgtgtagt aattattta tatgtaaac 
      tagacaaca cattgttgg acttattta cgaaatata 
      cagtaaaca gaagt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY