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Gene information
General information
TC030541 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_007419.2: 2933934..2935576
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
    TC030541
    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_09866

    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: 10.0% (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


    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: % (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
    • >TC030541 RA
      MDNLEDRTK EELIAEIRA LKAHNKQLQ NIILKGTAT 
      KPANQPKCQ KPFDFQNCK FRHVLLKFL YLGWDYQGY 
      VTQEDTVNT IEHHVFNAL IKTCLIENR SSANYHRCG 
      RTDKGVSSF SQVISLDLR SNGDDFESE INYCKILNR 
      VLPENIQFV AWCPVESAF SARFDCKNR TYKYFFPKS 
      NLDIDAMKI AANYLVGTH DFRNFCKMD VNNGVVEFK 
      RNILSVDIS LFQEDERYS IQVLTIKGN AFLWHQIRC 
      IVGILILVG QGKEKPEVV LDLLDITRN PRKPDYHMA 
      SEIPLNLYD CHYDNVNWI YDKEALNIV KAKLYKFWM 
      FSSIKTAMM KSMLVDLEK EASELDHDS IDFLIQGVK 
      RKNYVPVMK RQLCESLED KIQHSLKRR KRKANPS
    CDS sequence
    • >TC030541 RA
      atggataac ttagaagac cgcaccaag gaggaatta 
      attgcagag ataagggcc ttgaaggcc cacaacaag 
      cagttgcaa aatatcatc ctgaaaggc accgctact 
      aaacctgct aatcaacca aaatgccag aaaccgttc 
      gatttccaa aattgcaaa tttcgccac gttttgttg 
      aaattcttg tatttgggt tgggattac caagggtat 
      gtcactcag gaagacacc gtgaatacc atagaacac 
      catgtgttc aacgccctc ataaaaacg tgtttaatt 
      gaaaaccgt tccagtgcc aattatcac cgttgtgga 
      cgcactgat aagggtgtc agttctttt tcacaggtc 
      atatcttta gatttacgg tcaaatggt gatgatttt 
      gaaagcgaa atcaattat tgtaaaatt ctaaatcga 
      gttttgcct gaaaacatc cagtttgta gcctggtgt 
      cctgtcgaa agcgcattt agtgcacgc tttgattgt 
      aaaaatcgc acttacaaa tactttttt cccaagtcg 
      aatttggat attgacgca atgaaaatt gcggctaat 
      tatttagta ggaacgcat gattttagg aatttttgt 
      aagatggat gtcaataac ggcgttgtt gaattcaag 
      agaaatatt ctatcagtt gatattagt ttatttcag 
      gaagatgaa agatactcg attcaggtt ttgaccatc 
      aaagggaac gcttttttg tggcatcaa attcgttgt 
      attgttggg attttgatt ttagtaggt cagggtaaa 
      gaaaaaccg gaagtcgtt ttggacctt ctagacatt 
      acaagaaat ccgagaaaa ccagactat cacatggcc 
      agcgaaatt cctcttaac ttgtatgac tgtcattat 
      gataacgtg aattggatt tatgacaaa gaggcatta 
      aatattgta aaagcgaag ctatataaa ttttggatg 
      ttctcgtcc attaagaca gcaatgatg aaaagcatg 
      ttagtagac ttagagaaa gaagctagt gagctggac 
      cacgattct atagatttt ttaattcaa ggtgtaaaa 
      cgtaagaac tatgttcca gtaatgaag cgacaatta 
      tgtgagagt ctggaggat aaaatccaa cattcccta 
      aaacgacgc aaacgaaaa gcaaaccca agctaa
    mRNA sequence
    • >TC030541 RA
      tggaataac catacataa acataacca agagaaatc 
      accaattct aattcaaaa attgtaaaa attagaaaa 
      ttagatgga taacttaga agaccgcac caaggagga 
      attaattgc agagataag ggccttgaa ggcccacaa 
      caagcagtt gcaaaatat catcctgaa aggcaccgc 
      tactaaacc tgctaatca accaaaatg ccagaaacc 
      gttcgattt ccaaaattg caaatttcg ccacgtttt 
      gttgaaatt cttgtattt gggttggga ttaccaagg 
      gtatgtcac tcaggaaga caccgtgaa taccataga 
      acaccatgt gttcaacgc cctcataaa aacgtgttt 
      aattgaaaa ccgttccag tgccaatta tcaccgttg 
      tggacgcac tgataaggg tgtcagttc tttttcaca 
      ggtcatatc tttagattt acggtcaaa tggtgatga 
      ttttgaaag cgaaatcaa ttattgtaa aattctaaa 
      tcgagtttt gcctgaaaa catccagtt tgtagcctg 
      gtgtcctgt cgaaagcgc atttagtgc acgctttga 
      ttgtaaaaa tcgcactta caaatactt ttttcccaa 
      gtcgaattt ggatattga cgcaatgaa aattgcggc 
      taattattt agtaggaac gcatgattt taggaattt 
      ttgtaagat ggatgtcaa taacggcgt tgttgaatt 
      caagagaaa tattctatc agttgatat tagtttatt 
      tcaggaaga tgaaagata ctcgattca ggttttgac 
      catcaaagg gaacgcttt tttgtggca tcaaattcg 
      ttgtattgt tgggatttt gattttagt aggtcaggg 
      taaagaaaa accggaagt cgttttgga ccttctaga 
      cattacaag aaatccgag aaaaccaga ctatcacat 
      ggccagcga aattcctct taacttgta tgactgtca 
      ttatgataa cgtgaattg gatttatga caaagaggc 
      attaaatat tgtaaaagc gaagctata taaattttg 
      gatgttctc gtccattaa gacagcaat gatgaaaag 
      catgttagt agacttaga gaaagaagc tagtgagct 
      ggaccacga ttctataga ttttttaat tcaaggtgt 
      aaaacgtaa gaactatgt tccagtaat gaagcgaca 
      attatgtga gagtctgga ggataaaat ccaacattc 
      cctaaaacg acgcaaacg aaaagcaaa cccaagcta 
      attttacaa gaatatatt tataaatac ata
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY