Status
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Gene information
General information
TC009298 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_007422.5: 1781680..1783841
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
    TC009298
    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_08625

    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: 30.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection


    Adult morphology
    abdominal odoriferous glands size decreased - Number of animals showing the phenotype: 5 (13 dpi)
    Days post injection



    abdominal odoriferous glands content opaque - Number of animals showing the phenotype: 5 (13 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): less than 30%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    head capsule size decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    mandible not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    head appendages partially not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    legs podomer partially not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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
    • >TC009298 RA
      MTNNKPNCA CLFPFLPCW YPLSPDDLI KKRRSNDID 
      KQIAKDKEE FNKTLRLLL LGAGESGKS TIIKQMQLI 
      HVDKFSDTV RKQRRDDIR DNLADAIVS ILGAMPKIT 
      PPVRLDNER HETMAKWVL DNATKQDFD YPSQFYEFT 
      KILWKDTGV QATFERSNE YQLVDSAKY FLEKIDEIA 
      RDDYMPTDQ DIIRCRVLT TGIYELSFQ VKEINFQII 
      DVGGQRDER RKWFLCFND VTAIIFVTA CSSYNLVLR 
      EDPSKNRLK ESLELFKIV WNNRWLCRI SVIVFLNKQ 
      DLFREKILS GRSKLEDYF PEYKDFKTS HVERDEHPE 
      VNRAKHFIK NEFEKISRL SNQSLQHRF YPHFTCAVD 
      TDDVKRVFD VCQTVFDDC RKNIQIKHL IEHDLM
    CDS sequence
    • >TC009298 RA
      atgactaac aataaacca aactgcgcg tgtttgttt 
      ccattcttg ccctgttgg taccccctg agccccgac 
      gatttgatc aagaagcgg cgcagcaat gacatcgac 
      aagcagatt gctaaagac aaggaggag tttaataaa 
      accctccgc ttgttactg ttgggggcc ggggagtca 
      ggcaagtcc accatcatc aaacagatg cagcttatc 
      cacgtggat aagttcagt gatacggtt aggaagcaa 
      agacgggac gatattaga gacaatctg gctgatgcg 
      atagtgagc atacttggg gccatgccc aaaatcact 
      ccgccagtc agattagat aatgagagg catgagaca 
      atggcaaag tgggtgcta gataacgca actaagcag 
      gattttgat tatccgagc cagttttac gagtttacg 
      aaaattttg tggaaggat acaggcgtt caggccact 
      tttgagagg agtaacgaa tatcagttg gtagacagt 
      gctaagtat tttttggaa aagatcgac gaaattgca 
      agggatgat tacatgccc actgatcag gatattata 
      agatgcagg gtcctaact acgggtatt tacgaactc 
      tccttccaa gtcaaggaa attaatttc caaataatc 
      gacgttggg gggcagcgg gacgagcgc cgcaagtgg 
      ttcttgtgc ttcaatgac gtcacggcg attatcttc 
      gtcacagct tgtagttcc tataatttg gttttgcgc 
      gaagacccg tccaaaaac cgcctcaaa gagagcctc 
      gaattgttc aaaatcgtg tggaacaac cgctggttg 
      tgccgcatt tccgtgata gtgttctta aataagcag 
      gatctcttc agggaaaaa atcctctca gggcgcagt 
      aaactcgag gactacttt cccgaatat aaagacttc 
      aagacgtcg cacgtggaa cgcgacgag catcccgag 
      gtgaatcgg gccaaacat tttataaaa aacgagttt 
      gaaaaaatt agccgattg agcaatcaa tcgttacag 
      caccggttt tacccccat ttcacgtgt gcggtagac 
      actgacgac gttaagagg gtctttgat gtgtgtcaa 
      acggtgttt gacgactgt cgcaaaaac atccaaatc 
      aagcatctc atcgaacac gatttaatg taa
    mRNA sequence
    • >TC009298 RA
      gccacccaa cgtcaacca actgtcacg ttgacacgt 
      cgcctaacc caacttatt tgtttatga ttttcggct 
      tgtttttcg cggtgattc gactagatt taagttcag 
      gatgtacta tgactaaca ataaaccaa actgcgcgt 
      gtttgtttc cattcttgc cctgttggt accccctga 
      gccccgacg atttgatca agaagcggc gcagcaatg 
      acatcgaca agcagattg ctaaagaca aggaggagt 
      ttaataaaa ccctccgct tgttactgt tgggggccg 
      gggagtcag gcaagtcca ccatcatca aacagatgc 
      agcttatcc acgtggata agttcagtg atacggtta 
      ggaagcaaa gacgggacg atattagag acaatctgg 
      ctgatgcga tagtgagca tacttgggg ccatgccca 
      aaatcactc cgccagtca gattagata atgagaggc 
      atgagacaa tggcaaagt gggtgctag ataacgcaa 
      ctaagcagg attttgatt atccgagcc agttttacg 
      agtttacga aaattttgt ggaaggata caggcgttc 
      aggccactt ttgagagga gtaacgaat atcagttgg 
      tagacagtg ctaagtatt ttttggaaa agatcgacg 
      aaattgcaa gggatgatt acatgccca ctgatcagg 
      atattataa gatgcaggg tcctaacta cgggtattt 
      acgaactct ccttccaag tcaaggaaa ttaatttcc 
      aaataatcg acgttgggg ggcagcggg acgagcgcc 
      gcaagtggt tcttgtgct tcaatgacg tcacggcga 
      ttatcttcg tcacagctt gtagttcct ataatttgg 
      ttttgcgcg aagacccgt ccaaaaacc gcctcaaag 
      agagcctcg aattgttca aaatcgtgt ggaacaacc 
      gctggttgt gccgcattt ccgtgatag tgttcttaa 
      ataagcagg atctcttca gggaaaaaa tcctctcag 
      ggcgcagta aactcgagg actactttc ccgaatata 
      aagacttca agacgtcgc acgtggaac gcgacgagc 
      atcccgagg tgaatcggg ccaaacatt ttataaaaa 
      acgagtttg aaaaaatta gccgattga gcaatcaat 
      cgttacagc accggtttt acccccatt tcacgtgtg 
      cggtagaca ctgacgacg ttaagaggg tctttgatg 
      tgtgtcaaa cggtgtttg acgactgtc gcaaaaaca 
      tccaaatca agcatctca tcgaacacg atttaatgt 
      aactgtggt acttatgca agcatttat ttttgttat 
      ctattgtag tttactttt atgttctca aagaacgaa 
      aactagtct agtcggttt ctgattcag tatttgtat 
      gtgatatag cgagagtcg aaataaaac gcggtcaag 
      agtgctgtg acattatgt aaattaaac aattggtat 
      atttgacag attattgat aggtgttga cgttcatgt 
      catagcacc cttgaccac gcttacttg ttaaaacga 
      atttttatg cttcctcca gtggcgcct cggcagttc 
      aaaactagg caaaattgt atcaaaatt gataaaaat 
      caatcagtt aactacctg gaaaattac gttattttg 
      aggtacaaa cccaagaag gagaaaaga ttcattact 
      attcattaa ttttaggtg gagtcactt cacctattt 
      gattaagcg agtcgccac tggcttttt tagttttca 
      tcctgttat tcgtgcctt tacacgaac taaaatctg 
      gacaaaatt atttgtgcc ttaatttat ttttttatt 
      gttttctct aataaagat ctgtctgat cttaatctc 
      ccagtagtt gagtatctc acactgtaa taaataagt 
      caataaatt aactgcggc taa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY