Status
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Gene information
General information
TC002777 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_007418.3: 11605182..11608993
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
    TC002777
    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_09013

    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: 1 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    Fertility
    mature egg not present - Number of animals showing the phenotype: 2

    vitellogenic egg chamber late number decreased - Number of animals showing the phenotype: 3
    vitellogenic egg chamber potentially structure degenerated - Number of animals showing the phenotype: 1

    yolk deposition irregular - Number of animals showing the phenotype: 3

    yolk ectopically earlypresent - Number of animals showing the phenotype: 2

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 50 larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 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): 30% - 50%
    cuticle remnants strongly fragmented (cuticle crumbs) - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larva segment number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    larva appendages shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    larva bristle mostly not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larva potentially everted (inside-out) - Penetrance (percentage of animals/eggs on slide): less than 30%

    head appendages shape swollen - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    legs segment number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    legs pretarsus present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    legs segment potentially fused - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen segment sometimesnumber decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen segment shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen tracheal opening mostly not present - 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
    • >TC002777 RA
      MSYQDEEEG GAFDGHASS FPKDFGYGA FDGDHDVNL 
      SASGEQKPR ILLMGLRRS GKSSIQKVV FHKMSPNET 
      LFLESTNKI VKDDINNSS FVQFQIWDF PGQIDFFDS 
      SFDSDMIFG GCGALVFVI DAQDDYMEA LNKLNLTVT 
      KAYKVNPSI KFEVFIHKV DGLGDDFKM ESQRDIHQR 
      ATDDLADSG YDQIHLSFH LTSIYDHSI FEAFSKVVQ 
      KLIPQLPAL ENLLNILNT NSAIEKSFL FDVVSKIYI 
      ATDSTPVDM QSYELCCDM IDVVIDVSW IYGQVFSVK 
      EEQDPAAFD EQSSSLIKL NNGTVLYLR EVNKFLALV 
      CILREDNFD HKGIIDYNF LCFREAIQQ VFELRNKCQ 
      GNSLTNSAG SPIVNGNNI LGERHLSPT LTDELGSK
    CDS sequence
    • >TC002777 RA
      atgtcgtat caagatgaa gaggaaggt ggggctttt 
      gatgggcat gcaagttcg tttcctaaa gattttggt 
      tatggggct ttcgacggg gaccacgac gtgaacctg 
      tcggcctca ggggaacag aaacctcga atacttctc 
      atggggctc aggagatct gggaaatcg tcgatacag 
      aaagtcgtt ttccataaa atgtcccca aacgaaact 
      ctcttcctt gaaagtaca aataagata gttaaggat 
      gacataaac aactccagt tttgttcag ttccaaatc 
      tgggatttc cccggacag attgatttt ttcgattcg 
      tcgtttgat tccgacatg atttttggc ggctgtggg 
      gcgctagtt ttcgtgata gatgcccaa gacgactac 
      atggaagct ctcaataaa ttaaatcta acggttaca 
      aaagcctac aaagtgaac ccgtcgata aaatttgaa 
      gttttcatt cataaggta gatggctta ggagatgat 
      ttcaagatg gagtcgcag agggacatc catcagcga 
      gccacagat gacttagcc gactctggt tatgaccaa 
      atacacctc agttttcat ttgacgtcg atctacgac 
      cactcgatt ttcgaagcg ttctctaaa gtagtgcaa 
      aagttgatc cctcagtta ccggccttg gaaaacttg 
      ctcaatatt ttaaacacg aattcagcg attgaaaaa 
      tcgtttttg ttcgatgtg gtttcaaaa atctacatt 
      gcgaccgat tcaaccccc gtcgatatg caaagctac 
      gaattgtgc tgcgatatg atcgacgtt gtgattgac 
      gtttcgtgg atttatggt caagttttc agtgtcaaa 
      gaggaacaa gacccggcc gccttcgac gagcagagt 
      tctagtctt attaagtta aataacggt actgttctt 
      tatttgagg gaagtcaac aaattcctg gctctagtc 
      tgtattttg cgagaggac aatttcgac cacaaagga 
      atcatcgac tacaatttt ttgtgcttt cgggaggcg 
      atccagcaa gtgtttgaa ttgcgaaat aagtgccaa 
      ggtaactcg ttaactaat tccgcaggc agccctata 
      gttaatgga aacaatatt ttgggagag aggcattta 
      agtcccaca ctaactgat gaactaggt agtaaataa
    mRNA sequence
    • >TC002777 RA
      acgattttg atggcgtcg caagtgtca tatgatgtc 
      aaaagttta catttttcc acattttga taatttatg 
      cgatgtgta atcaccgtg gcttttaaa tcaacacaa 
      acccaaaca tttctcgca aaattcaac aatgtcgta 
      tcaagatga agaggaagg tggggcttt tgatgggca 
      tgcaagttc gtttcctaa agattttgg ttatggggc 
      tttcgacgg ggaccacga cgtgaacct gtcggcctc 
      aggggaaca gaaacctcg aatacttct catggggct 
      caggagatc tgggaaatc gtcgataca gaaagtcgt 
      tttccataa aatgtcccc aaacgaaac tctcttcct 
      tgaaagtac aaataagat agttaagga tgacataaa 
      caactccag ttttgttca gttccaaat ctgggattt 
      ccccggaca gattgattt tttcgattc gtcgtttga 
      ttccgacat gatttttgg cggctgtgg ggcgctagt 
      tttcgtgat agatgccca agacgacta catggaagc 
      tctcaataa attaaatct aacggttac aaaagccta 
      caaagtgaa cccgtcgat aaaatttga agttttcat 
      tcataaggt agatggctt aggagatga tttcaagat 
      ggagtcgca gagggacat ccatcagcg agccacaga 
      tgacttagc cgactctgg ttatgacca aatacacct 
      cagttttca tttgacgtc gatctacga ccactcgat 
      tttcgaagc gttctctaa agtagtgca aaagttgat 
      ccctcagtt accggcctt ggaaaactt gctcaatat 
      tttaaacac gaattcagc gattgaaaa atcgttttt 
      gttcgatgt ggtttcaaa aatctacat tgcgaccga 
      ttcaacccc cgtcgatat gcaaagcta cgaattgtg 
      ctgcgatat gatcgacgt tgtgattga cgtttcgtg 
      gatttatgg tcaagtttt cagtgtcaa agaggaaca 
      agacccggc cgccttcga cgagcagag ttctagtct 
      tattaagtt aaataacgg tactgttct ttatttgag 
      ggaagtcaa caaattcct ggctctagt ctgtatttt 
      gcgagagga caatttcga ccacaaagg aatcatcga 
      ctacaattt tttgtgctt tcgggaggc gatccagca 
      agtgtttga attgcgaaa taagtgcca aggtaactc 
      gttaactaa ttccgcagg cagccctat agttaatgg 
      aaacaatat tttgggaga gaggcattt aagtcccac 
      actaactga tgaactagg tagtaaata aattaaata 
      aatgtaaga aataaaaaa atgtacata ggtacgatg 
      tgcctttta tttttgtgt acgacttgt tatttttat 
      gtttatcgt ttcatatat tttaaaaag tctaaatgt 
      atatatagc gtctttcca tgtatcatt ttaagtttt 
      gtaagcaca catgttaaa ccaatcgaa acctactct 
      cagctaagc tttgtttca ataaattct ttattaccg 
      aattgttgt tttcttgaa actaaacca cgaccataa 
      gt
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