Status
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Gene information
General information
TC005884 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: 6023275..6028671
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
    TC005884
    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_04029

    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)

    adult lethality immediately after eclosion - 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


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    head capsule size decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    head appendages shape irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    head irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    legs podomer shortened - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    thorax irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    abdomen irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    Fertility
    egg production: number no/almost no eggs -
    egg chamber number decreased - Number of animals showing the phenotype: 3

    tropharium shape irregular -

    mature egg not present -

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005884 RA
      MSELVVGID LGTTNSCIA VERNGKIEV IPNREGNRT 
      TLSYVYYGE DSILVGKTA KYMASANPS NGIYEIKRL 
      IGCLHDDPD IESERKSLN YELVRGTNG EILIQVEQN 
      SEKFHTLPE EVCARILHR LKIDAEMYL GQKVSKAVV 
      TVPAYFNNN QRAATRDAA RIAGFEVLK LVNEPSAAA 
      LAYVRENRI KNGRVILIY DLGGGTFDV SIVRTENGT 
      IKVLSVDGD THLGGQDFL NRLVDHVVD YVQTKHGIK 
      VRENKRLMM NILNSCEKT KKILTSANR TVIPLEFSG 
      HFDQLEVTR EQFEELNRD LFAKTVKIL DNCIRNRRM 
      SKEEIDEVL LVGGSSRIP RIETLLKAY FDKPIQRNI 
      NADEAIAIG AALEAHHFA QTHHNSLLI DVLPLSIGT 
      VFDEETIFF NFARNTPLP ANSKHVHVF KNRKQKNCI 
      LSVYEGGHL DCNKNVLLG AHEIKWTAT TKKNRNVEI 
      TMQINNYGI IWVTARGES IKTFSIALN KGRLEDDEI 
      RKLSRGLQV S
    CDS sequence
    • >TC005884 RA
      atgtctgaa ttggtggtc ggaattgac ttaggaaca 
      acgaattct tgtattgcc gttgaacga aacggtaaa 
      atcgaggta ataccgaat cgcgaaggc aacagaacc 
      acgttatcg tacgtttat tatggcgaa gacagcatc 
      cttgttggc aaaacggcc aaatacatg gccagcgcc 
      aatccatca aacggcatt tacgagatc aaaagactg 
      atcggctgt ttgcacgac gaccctgat atcgaatcc 
      gagcgcaaa tcgctaaat tatgagttg gtccgcggc 
      accaacggc gagattttg atccaagtc gagcaaaac 
      tcggagaaa tttcacact ttaccggag gaagtgtgc 
      gccaggatc ctccaccgt ctgaaaatc gacgctgaa 
      atgtacctt ggacagaaa gtgagcaaa gcggtggtc 
      accgtcccc gcgtacttc aacaacaat caaagggca 
      gcgactcgg gacgccgcc agaatcgcc ggcttcgaa 
      gtgctgaag ctggtgaac gaacctagt gctgccgct 
      ctggcctac gtccgcgaa aatcgcatc aaaaacggc 
      cgagttatc ctaatttac gacctgggt ggtggcacc 
      tttgatgtg tccattgtc cggacagag aacggaaca 
      atcaaagtg ctatcagtc gacggtgac acgcatcta 
      ggaggccag gattttctg aaccgcctt gtagaccac 
      gtggtcgat tacgtgcaa accaaacac gggataaaa 
      gtgcgcgaa aacaaacgc ttgatgatg aacattttg 
      aattcgtgc gagaaaacc aaaaaaatt ctgacaagt 
      gcaaaccga accgtcatc ccgctggaa ttcagcggc 
      cacttcgac cagttggaa gtcacacgt gaacagttc 
      gaggagcta aaccgcgat ctcttcgcc aaaacggtc 
      aaaatcctc gacaactgc atcaggaac cgacgaatg 
      agcaaggag gaaattgac gaggttttg ctagtcgga 
      ggctcctcg aggattccc cggattgaa accctcctc 
      aaagcctac ttcgacaaa cccatccag cgcaacatc 
      aacgccgac gaggccatc gccataggg gcggccctt 
      gaagcccac catttcgcc caaacccac cacaattcg 
      ctcctaatt gacgtgctt ccactttca atagggacg 
      gttttcgac gaagagacc atttttttc aatttcgcg 
      cgcaacacg ccgctccca gccaactcc aaacacgtc 
      catgttttc aaaaatcgc aaacaaaag aactgtatt 
      ttgtcggtg tacgagggg gggcatttg gattgcaat 
      aaaaacgtc ctgttgggg gcgcacgaa atcaaatgg 
      acggccaca acgaaaaag aacagaaat gtcgaaatt 
      acgatgcaa attaacaat tatgggatt atttgggtg 
      acggcgaga ggcgagtcg attaagacg ttcagcatt 
      gcgctgaat aagggacga cttgaagac gacgaaatt 
      cggaaattg agccgagga ttgcaagtc tcgtaa
    mRNA sequence
    • >TC005884 RA
      gtaaaaaat aattattat aataaacta caaacaagc 
      tatgataac gcaattatt tcgcagaat tttgttgaa 
      aacaaatgt acctgatac ctccgaaac agtgcgcac 
      aacgttgta aaaataaat tgcccccgc gcaattgcc 
      caacatttt aaatattta ggtatcgat aaaaatcga 
      gataagata aaatcaaaa caatcaacg attaatctc 
      agttttttt cgcgaaaat gtctgaatt ggtggtcgg 
      aattgactt aggaacaac gaattcttg tattgccgt 
      tgaacgaaa cggtaaaat cgaggtaat accgaatcg 
      cgaaggcaa cagaaccac gttatcgta cgtttatta 
      tggcgaaga cagcatcct tgttggcaa aacggccaa 
      atacatggc cagcgccaa tccatcaaa cggcattta 
      cgagatcaa aagactgat cggctgttt gcacgacga 
      ccctgatat cgaatccga gcgcaaatc gctaaatta 
      tgagttggt ccgcggcac caacggcga gattttgat 
      ccaagtcga gcaaaactc ggagaaatt tcacacttt 
      accggagga agtgtgcgc caggatcct ccaccgtct 
      gaaaatcga cgctgaaat gtaccttgg acagaaagt 
      gagcaaagc ggtggtcac cgtccccgc gtacttcaa 
      caacaatca aagggcagc gactcggga cgccgccag 
      aatcgccgg cttcgaagt gctgaagct ggtgaacga 
      acctagtgc tgccgctct ggcctacgt ccgcgaaaa 
      tcgcatcaa aaacggccg agttatcct aatttacga 
      cctgggtgg tggcacctt tgatgtgtc cattgtccg 
      gacagagaa cggaacaat caaagtgct atcagtcga 
      cggtgacac gcatctagg aggccagga ttttctgaa 
      ccgccttgt agaccacgt ggtcgatta cgtgcaaac 
      caaacacgg gataaaagt gcgcgaaaa caaacgctt 
      gatgatgaa cattttgaa ttcgtgcga gaaaaccaa 
      aaaaattct gacaagtgc aaaccgaac cgtcatccc 
      gctggaatt cagcggcca cttcgacca gttggaagt 
      cacacgtga acagttcga ggagctaaa ccgcgatct 
      cttcgccaa aacggtcaa aatcctcga caactgcat 
      caggaaccg acgaatgag caaggagga aattgacga 
      ggttttgct agtcggagg ctcctcgag gattccccg 
      gattgaaac cctcctcaa agcctactt cgacaaacc 
      catccagcg caacatcaa cgccgacga ggccatcgc 
      cataggggc ggcccttga agcccacca tttcgccca 
      aacccacca caattcgct cctaattga cgtgcttcc 
      actttcaat agggacggt tttcgacga agagaccat 
      ttttttcaa tttcgcgcg caacacgcc gctcccagc 
      caactccaa acacgtcca tgttttcaa aaatcgcaa 
      acaaaagaa ctgtatttt gtcggtgta cgagggggg 
      gcatttgga ttgcaataa aaacgtcct gttgggggc 
      gcacgaaat caaatggac ggccacaac gaaaaagaa 
      cagaaatgt cgaaattac gatgcaaat taacaatta 
      tgggattat ttgggtgac ggcgagagg cgagtcgat 
      taagacgtt cagcattgc gctgaataa gggacgact 
      tgaagacga cgaaattcg gaaattgag ccgaggatt 
      gcaagtctc gtaacccac atgcgacgc ctatggctg 
      ccgttggta tggaaatag cgaaaaatc catggttac 
      aacgtttgt tggcatgga aatgttgaa attttgatt 
      gttgatgca gtggcgtca catcctgcg ctcttatta 
      tttaaataa aatataaaa tataagtgg tcgtttcag 
      tagaattag ttttatccc acgcaataa tcaaaaacg 
      aatgcgttt tcatttatt tttcaagaa cttgtagaa 
      caaggagtt gtttgtctc gattcagct cgactgtaa 
      ataaaattt tatgaaaaa t
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY