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Gene information
General information
TC016245 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.

NW_015451514.1: 8477..10753
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
    TC016245
    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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    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_05980

    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)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    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: > 50
    egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    affected eggs/embryos/larvae - 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: -1.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: -1.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC016245 RA
      MCKQASLHR HRKRQIIEL VTPAYVGTP AGQEEFEEL 
      LLAVGGDWE ELFNLGAEN DQQEEDNHP KIVIHSDKV 
      IKPIAATGR KNLSLLRIQ EEENFSDMK EEEEAEAVV 
      QPAEPEKIE ELRNQFEEA AGGMREEIS ALKREIEEK 
      LMLLKRNRA NGEKLIKTL QSNIEHIKK PRRSKSPRP 
      PELQLAKRR LQRTTTENG LITINLLTL VYPLDTPAN 
      QPEFEEFFN SGCWSDWNS QLELDQVSH VSEDMEENS 
      ERNMEQNMK KQMDKNMEI KRISNKLIR PLSRSRGVK 
      DLSLLKEPF IEDVSEEEA TQPEMRLQQ MVKELATSI 
      NGERIEEEI RALKRKITD KAEALKRNR SFGEDLLRN 
      LDEEEAEIR SNMERQISF VRRRRQNIQ NILDSQKKE 
      ELLKNILI
    CDS sequence
    • >TC016245 RA
      atgtgcaag caagccagc ctccaccgc catcgcaaa 
      agacaaatt attgagctc gtaactcct gcctacgta 
      ggcacacct gcagggcag gaagaattc gaagagctc 
      ctcctagct gtagggggt gactgggaa gagctcttc 
      aaccttgga gcagaaaac gatcagcaa gaggaggac 
      aatcacccc aaaattgta atacactct gataaagtg 
      attaaaccg attgcggcc acgggtcgc aaaaacctt 
      agcctccta aggattcaa gaggaagaa aacttctcc 
      gatatgaag gaggaggag gaggctgaa gccgtggtg 
      caaccggcg gaaccggaa aaaattgag gaattgagg 
      aaccagttt gaagaggcg gctgggggg atgcgagaa 
      gaaattagt gctctaaaa cgtgaaata gaggaaaag 
      ctaatgctt ttaaagcgg aatagagca aacggtgaa 
      aagctcatt aaaactctt caatcaaat attgaacat 
      ataaaaaaa cccaggagg agcaaatcg cctcgtcct 
      ccagaactg caactggcg aagcggcga ttacaacgt 
      actaccaca gaaaatggt ttaattacc atcaacttg 
      ctgacgcta gtttaccct ctggacact ccagcaaat 
      cagccagaa tttgaagaa ttttttaat tctggatgt 
      tggagtgac tggaatagt cagctagag ttggatcaa 
      gtgtcccat gtgagcgag gacatggag gaaaactct 
      gagcgtaac atggaacag aacatgaaa aagcagatg 
      gataagaac atggaaatt aaaagaatt tctaataaa 
      cttatcaga ccgttaagc aggtcaaga ggagtgaag 
      gacctcagt ctcctgaag gaacccttc attgaggac 
      gtttctgag gaagaagcc acccaacct gaaatgagg 
      ttgcaacaa atggtgaaa gaattggca acctcaatt 
      aacggagaa cgtatagaa gaagaaatt cgggccctc 
      aagagaaaa atcactgac aaagcggaa gcgctcaaa 
      aggaaccgc agcttcggg gaggacctt ttgaggaac 
      ctcgatgaa gaagaggca gaaattcgg tctaatatg 
      gagcgccaa atttcattt gtgagaaga aggcgtcaa 
      aatattcaa aatatttta gatagccag aaaaaggaa 
      gaattgttg aaaaatatt ttaatttaa
    mRNA sequence
    • >TC016245 RA
      aaagcttaa tcgtgtgtg ccttaattg tgttttcaa 
      gatgaatca atttgtgcc ttccacttc ggcaaatgc 
      tactgcttt taacaaatt tactttaat aaaatattt 
      atcattttt tgcttgagt ctaatattt ttctatttt 
      ttacagcta aaaaggaaa aatttactt tccttaagt 
      aaaactcac ctccaccac cactaagaa aaaatatta 
      aacgaaatg tgcaagcaa gccagcctc caccgccat 
      cgcaaaaga caaattatt gagctcgta actcctgcc 
      tacgtaggc acacctgca gggcaggaa gaattcgaa 
      gagctcctc ctagctgta gggggtgac tgggaagag 
      ctcttcaac cttggagca gaaaacgat cagcaagag 
      gaggacaat caccccaaa attgtaata cactctgat 
      aaagtgatt aaaccgatt gcggccacg ggtcgcaaa 
      aaccttagc ctcctaagg attcaagag gaagaaaac 
      ttctccgat atgaaggag gaggaggag gctgaagcc 
      gtggtgcaa ccggcggaa ccggaaaaa attgaggaa 
      ttgaggaac cagtttgaa gaggcggct ggggggatg 
      cgagaagaa attagtgct ctaaaacgt gaaatagag 
      gaaaagcta atgctttta aagcggaat agagcaaac 
      ggtgaaaag ctcattaaa actcttcaa tcaaatatt 
      gaacatata aaaaaaccc aggaggagc aaatcgcct 
      cgtcctcca gaactgcaa ctggcgaag cggcgatta 
      caacgtact accacagaa aatggttta attaccatc 
      aacttgctg acgctagtt taccctctg gacactcca 
      gcaaatcag ccagaattt gaagaattt tttaattct 
      ggatgttgg agtgactgg aatagtcag ctagagttg 
      gatcaagtg tcccatgtg agcgaggac atggaggaa 
      aactctgag cgtaacatg gaacagaac atgaaaaag 
      cagatggat aagaacatg gaaattaaa agaatttct 
      aataaactt atcagaccg ttaagcagg tcaagagga 
      gtgaaggac ctcagtctc ctgaaggaa cccttcatt 
      gaggacgtt tctgaggaa gaagccacc caacctgaa 
      atgaggttg caacaaatg gtgaaagaa ttggcaacc 
      tcaattaac ggagaacgt atagaagaa gaaattcgg 
      gccctcaag agaaaaatc actgacaaa gcggaagcg 
      ctcaaaagg aaccgcagc ttcggggag gaccttttg 
      aggaacctc gatgaagaa gaggcagaa attcggtct 
      aatatggag cgccaaatt tcatttgtg agaagaagg 
      cgtcaaaat attcaaaat attttagat agccagaaa 
      aaggaagaa ttgttgaaa aatatttta atttaattt 
      ttattatta ttattattc ttttttgtt tatattttt 
      tgtttatct gtttttaat tagttttta taataaata 
      atagttagt ata
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY