Status
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Gene information
General information
TC000318 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_007417.3: 13077888..13080833
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
    TC000318
    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
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    Email
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    Publish name
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_10741

    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


    Adult morphology
    abdominal odoriferous glands content darker - Number of animals showing the phenotype: 5 (13 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
    • >TC000318 RA
      MAAEKVDPV LKERCKDLI LDLDTLREI SRRFLHDVD 
      KGLRKDTHA TSIVKCFVT YVQDLPNGT ENGKFLALD 
      LGGTNFRVL LIELSKDHF EMRSKIYAI PQHIMLGSG 
      EQLFDHIAD CLASFMKQE QVIAETLPL GFTFSFPLT 
      QKGLTKGIL ERWTKGFNC SNCVGNDVV QLLKDAIAR 
      RGDIQIKVC AILNDTTGT LMSCAWKNP NCRIGLIVG 
      TGSNACYVE KQKNAELFD DEDKGSGNV IINLEWGAF 
      GDDGALDFI RTEYDRDVD ANSVNPGRQ LHEKMISGM 
      YMGELTRLA LEKFTKEGL LFEGKASDA LFTRGKFYT 
      KYVSEIEGD PAGVITSCR DILEELGIY HATDQDCFN 
      VRYVCECVS KRAADLAST GIATLLNKM NEARVTVAI 
      DGSVYRYHP HFHDLMMQT ISTLVNPGI KFDLMLSED 
      GSGRGAALV AAVACRTQQ KG
    CDS sequence
    • >TC000318 RA
      atggcagcg gaaaaagtt gatccagtg ctcaaagaa 
      agatgcaaa gatctgatc ctcgacctt gacaccctc 
      agggaaatc tcgcgtcgc ttcctgcac gacgtggac 
      aaagggctt cgcaaagac acccatgcc acgtccatc 
      gtcaaatgt ttcgtgacc tacgtccag gacctgccc 
      aatgggacc gaaaacggg aaattccta gctctagat 
      ctgggcggg accaacttc cgcgtcctt ttgatcgaa 
      ctgagtaaa gaccatttc gaaatgaga tcaaaaatc 
      tacgctatt ccccagcac atcatgctg ggctctgga 
      gagcagctt ttcgaccat attgccgat tgtctcgct 
      tcgttcatg aagcaggag caagtcatt gccgagacg 
      ctgcctttg gggttcact ttcagtttt cccttgacg 
      cagaagggc ctgactaag gggattttg gagaggtgg 
      acgaagggc ttcaactgc tcgaattgt gtcgggaac 
      gatgttgtt cagctgctc aaagatgct atagccagg 
      cgaggggac attcagatc aaagtgtgt gccatttta 
      aacgacacc actggcacc ctgatgtcc tgtgcgtgg 
      aagaacccg aactgccga atcggccta atagttggc 
      actggcagt aacgcttgt tacgtcgag aagcaaaaa 
      aacgccgaa ctcttcgac gacgaggac aaaggttcc 
      ggaaacgtg ataatcaac ctcgaatgg ggcgcgttc 
      ggcgacgac ggagccctc gatttcatc cgaacggag 
      tacgatcgt gacgtcgac gcgaattcg gtgaatccc 
      gggcgccaa ctgcacgag aaaatgatt tcggggatg 
      tacatgggg gaattgacg cgtctagcc ttggagaaa 
      ttcaccaaa gaagggctg ctgtttgag ggcaaagcc 
      tcggatgcg ttgttcacg cgcgggaag ttttacacc 
      aagtacgtg tcagagatt gagggcgac cctgcgggg 
      gtgataacg agctgtcgg gatattctg gaggagttg 
      gggatttat cacgccacg gatcaggac tgcttcaat 
      gtgagatac gtctgtgaa tgcgtttcg aagcgggct 
      gcggatttg gcgtccaca gggattgcc accttgttg 
      aataaaatg aacgaggcg agggtcaca gtggccatt 
      gatgggagt gtctatagg taccatcca catttccat 
      gaccttatg atgcaaacg atttcgact ttggtcaat 
      ccgggaatt aagttcgat ttgatgctg tcggaggac 
      gggagtgga cgaggggcc gctctggtc gctgctgtg 
      gcctgtcgg acccaacag aagggatag
    mRNA sequence
    • >TC000318 RA
      actccttgc cttggcgtt gcgcacgaa aaatccgcc 
      tttacaacc cgacaatag taaacttga gtgtgataa 
      tgaatgagt ttctaaacc gcgaaagaa aatccgttc 
      gttatttta agaccgaaa tttatttct gactcgact 
      ttgcgttaa acggacgcg ctagatagt gaaggtgaa 
      ccgtaaacg acccctaaa accaaaata ctgataatt 
      ttaaagaaa tttgatggt ttataatca cagacacaa 
      aacgcgcgt gtttagtcg aaccaatgg cagcggaaa 
      aagttgatc cagtgctca aagaaagat gcaaagatc 
      tgatcctcg accttgaca ccctcaggg aaatctcgc 
      gtcgcttcc tgcacgacg tggacaaag ggcttcgca 
      aagacaccc atgccacgt ccatcgtca aatgtttcg 
      tgacctacg tccaggacc tgcccaatg ggaccgaaa 
      acgggaaat tcctagctc tagatctgg gcgggacca 
      acttccgcg tccttttga tcgaactga gtaaagacc 
      atttcgaaa tgagatcaa aaatctacg ctattcccc 
      agcacatca tgctgggct ctggagagc agcttttcg 
      accatattg ccgattgtc tcgcttcgt tcatgaagc 
      aggagcaag tcattgccg agacgctgc ctttggggt 
      tcactttca gttttccct tgacgcaga agggcctga 
      ctaagggga ttttggaga ggtggacga agggcttca 
      actgctcga attgtgtcg ggaacgatg ttgttcagc 
      tgctcaaag atgctatag ccaggcgag gggacattc 
      agatcaaag tgtgtgcca ttttaaacg acaccactg 
      gcaccctga tgtcctgtg cgtggaaga acccgaact 
      gccgaatcg gcctaatag ttggcactg gcagtaacg 
      cttgttacg tcgagaagc aaaaaaacg ccgaactct 
      tcgacgacg aggacaaag gttccggaa acgtgataa 
      tcaacctcg aatggggcg cgttcggcg acgacggag 
      ccctcgatt tcatccgaa cggagtacg atcgtgacg 
      tcgacgcga attcggtga atcccgggc gccaactgc 
      acgagaaaa tgatttcgg ggatgtaca tgggggaat 
      tgacgcgtc tagccttgg agaaattca ccaaagaag 
      ggctgctgt ttgagggca aagcctcgg atgcgttgt 
      tcacgcgcg ggaagtttt acaccaagt acgtgtcag 
      agattgagg gcgaccctg cgggggtga taacgagct 
      gtcgggata ttctggagg agttgggga tttatcacg 
      ccacggatc aggactgct tcaatgtga gatacgtct 
      gtgaatgcg tttcgaagc gggctgcgg atttggcgt 
      ccacaggga ttgccacct tgttgaata aaatgaacg 
      aggcgaggg tcacagtgg ccattgatg ggagtgtct 
      ataggtacc atccacatt tccatgacc ttatgatgc 
      aaacgattt cgactttgg tcaatccgg gaattaagt 
      tcgatttga tgctgtcgg aggacggga gtggacgag 
      gggccgctc tggtcgctg ctgtggcct gtcggaccc 
      aacagaagg gatagacaa ttgggaatc gcttcgaga 
      cgattctgt agccaaata tacacgaat ctatttttg 
      ttaaagtcg aataaagat taatttatt ta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY