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Gene information
General information
TC006952 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: 343345..369152
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
    TC006952
    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
    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
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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_04243

    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: 0.0% (includes death as pupa, adult)

    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: 30.0% (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: 3 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006952 RA
      MHGTAGLHS AMAIKRQRR LREQAKRKR ERRLSSHTS 
      SMDSMEHLP TKKISHHAP PDHRLATSI GMLHIGVCF 
      LVFGLFLIG SGLLPDDMV TWRGGGWWN ELLATGIFV 
      AALGIFLIA LNRVMSRRE EEDLNEYVS RQLTRSRSG 
      HRLERDLET GCLTTKNHR RILEKKRED EDRGINDIT 
      PVHSPHTKI APVSIQNGD AYLEKIVEE DVFEKITDE 
      TKPFENRET MSTTTTASL SPGTPSETR ELITNARQY 
      SFNSRQY
    CDS sequence
    • >TC006952 RA
      atgcatggt accgcaggt ctccactcg gccatggcc 
      attaagcgc caaagaaga ctgcgagaa caagccaaa 
      cgcaagcgc gaaagacgc ttgtcttcg cacaccagc 
      agcatggac agcatggag catttgcca acgaagaag 
      atctcccac cacgcaccc cctgatcac cgtctcgcc 
      acttccatc gggatgctt cacattgga gtgtgcttc 
      ttagtgttt ggtcttttt ctcattgga tctggactg 
      cttccagat gatatggtc acatggaga ggtggcggt 
      tggtggaat gaactgcta gcgactggg atttttgtc 
      gcagcgttg gggattttt ctcatcgca ctgaataga 
      gtaatgtcg cgacgtgag gaagaagac ctcaacgag 
      tatgtttca agacaactg acgagatcg aggagtggt 
      catcgacta gaaagggat cttgaaact gggtgttta 
      accacgaaa aaccacaga cgaattctt gagaaaaaa 
      agggaagat gaagaccga ggtatcaat gatattaca 
      cctgttcac tcgccgcat actaaaatt gcacctgtt 
      tccatacaa aatggcgat gcttacttg gaaaaaatc 
      gttgaagag gacgtgttt gaaaaaatt acggatgaa 
      accaagccg tttgaaaat agagagact atgtcgaca 
      actaccact gctagtttg agtcctggg actccttct 
      gaaacgaga gaattaatc acaaatgct aggcagtac 
      agctttaat tccagacag tattag
    mRNA sequence
    • >TC006952 RA
      caacacctt ccgtcttgc cgatgatgg tggaggaag 
      aaaaggtgc aagaaaagc ttgccgcgt aaaaagttt 
      atcagaatt tgtttcacg ttttgtgtt tatccgact 
      attgaacgc atcacgacg gattaaaat taatttgag 
      acgagtata tcgtgttat tataaataa cgagacaaa 
      tggtaacta catttcggt aaactggtt cagcaatac 
      tttcacaag tgaagagtc ctaaagtca tgtgaatta 
      gttttgctt ttcgcccct aaacaccca caaggaaga 
      aatcacgat gcatggtac cgcaggtct ccactcggc 
      catggccat taagcgcca aagaagact gcgagaaca 
      agccaaacg caagcgcga aagacgctt gtcttcgca 
      caccagcag catggacag catggagca tttgccaac 
      gaagaagat ctcccacca cgcaccccc tgatcaccg 
      tctcgccac ttccatcgg gatgcttca cattggagt 
      gtgcttctt agtgtttgg tctttttct cattggatc 
      tggactgct tccagatga tatggtcac atggagagg 
      tggcggttg gtggaatga actgctagc gactgggat 
      ttttgtcgc agcgttggg gatttttct catcgcact 
      gaatagagt aatgtcgcg acgtgagga agaagacct 
      caacgagta tgtttcaag acaactgac gagatcgag 
      gagtggtca tcgactaga aagggatct tgaaactgg 
      gtgtttaac cacgaaaaa ccacagacg aattcttga 
      gaaaaaaag ggaagatga agaccgagg tatcaatga 
      tattacacc tgttcactc gccgcatac taaaattgc 
      acctgtttc catacaaaa tggcgatgc ttacttgga 
      aaaaatcgt tgaagagga cgtgtttga aaaaattac 
      ggatgaaac caagccgtt tgaaaatag agagactat 
      gtcgacaac taccactgc tagtttgag tcctgggac 
      tccttctga aacgagaga attaatcac aaatgctag 
      gcagtacag ctttaattc cagacagta ttaggttca 
      aaaaattaa aatgtttct atatttact attttgaca 
      gacttcttc taatattta ttgttgtag ttagtaatc 
      gattagata gcaagaacg cacaccctt ttgatatcg 
      taaaaacta agcttatgt aggcgtttt tcaaaccag 
      gctgctcct ttatccttt atctaaatt gaaaataaa 
      atcttttat acttactat aatttattt tagtaaata 
      acgaccact agtgagatc ccaggaatt tacgaatta 
      gatgaaagg atttaagta acacaaact agtaaactc 
      ataagcatt gtttattta tttattgtt tagtttatt 
      tttttataa agtgaatat taatattca aatacaaat 
      ttaccacat ttctgcagt aaatacatc taggagatt 
      cgcttttct tgtcgtaaa aaatacgtt tgtttaaca 
      tctatttta tttgaccgc agtccgtcc atactcacg 
      aaaacacgt cttgtctgt tcgaaacgt atatacaga 
      gtgttcaga attgtttgt gcataccaa attcaaata 
      aaaatattt caaatatca aacaattat actttttct 
      ttaataaaa ttttgcatt tttccgtaa atgtgtttg 
      aaatttagg attttaaaa agctttttg tgctgccat 
      agttgcagt tgacatttt gggttgact ttcattcat 
      gctgcatag aacaaacaa gaaatttaa ttagcttag 
      aacaaaagt gtttgcaga gttgaaatt ggaacactg 
      acagaatat ttattgata aaaaattga ataccaaca 
      taattttga ggtt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY