Status
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Gene information
General information
TC011236 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_007425.3: 389302..393929
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
    TC011236
    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_04999

    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: 40.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 3 (9 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (11 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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 40.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 3 (16 dpi)
    Days post injection



    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011236 RA
      MSAFFWYDY LIFFIVLAI SSCTGIYYG CFGTKQKTI 
      KEYLLGGKN MATWPIGIS VAVSHFSAI TIMGAPSDI 
      YKFGAYYTY STIGMALLG LISIFVFFP VFFKLQVTT 
      IYEYLEKRF DHKTKVFAS FLFIVGEVV IVSVSIYAP 
      SLALSAVTG IHVYYIIIC VFGICIFYT TIGGLKTVV 
      WTDIFQSGV ILLSMFIIC VIGLNTTGN FSTLWKTAL 
      DGGRLDILN FDVDPTLRD SFWTFVIGF TFHCTYYVS 
      LSQSGVQKY LALATFRDC IWAVVFYVI TMEIVELFC 
      VFLGLLAYG HYANCDPFT TGKIQRHEQ LLPYYVTEI 
      AGHIPGVTG FTLVGLFCA TMSTISSSL NAISGVVYK 
      DCLSRFLKK DITEKASGR ILRVIVVIT GILSMLLIF 
      VLQHLGDIL PVAVSGASI GSGPILGVF FLGFLFPQA 
      NAKGAFYGA IVSFVFQTF VLIVSKMYR YKKIIVDVT 
      LPFSVSGCW TNGSLASNS TLSNGFSSP NNVTINSEL 
      SHYYNCMLG LIVTVIVGL IISYLTNKN DPPVDKELI 
      SPVVRRFVK KDNKPEIDS RELKALMTK EYNTQGLEK
    CDS sequence
    • >TC011236 RA
      atgtctgcc ttcttctgg tacgactat ctaattttc 
      ttcatagta ctagctatc agttcctgc accggaatt 
      tattatggc tgcttcgga accaagcaa aaaacaatc 
      aaagagtac cttttggga ggcaaaaac atggctact 
      tggccgatc ggaatttcg gtagctgta agccacttt 
      tctgcaatt accataatg ggggcaccg tccgatatt 
      tacaaattt ggggcatat tacacctac agtacgatc 
      ggtatggca ctgctggga ctgatttca atttttgtc 
      tttttcccc gtttttttc aaactgcaa gttaccacc 
      atttatgaa tatttggaa aaacgcttc gatcacaaa 
      accaaagtt ttcgcgtca tttttgttt attgtgggg 
      gaggttgtt atcgtttcg gttagcatt tatgcaccg 
      tctttggca ctttcagca gttactggg attcatgtt 
      tattacata attatttgt gtgtttggc atttgtatt 
      ttctatact acaatcgga ggcctaaaa accgtcgtt 
      tggactgat attttccaa agtggagtt attctctta 
      tctatgttt ataatttgt gtaatcggt ctaaatacc 
      actggaaat ttttcaacg ctgtggaaa acagcactc 
      gacggtgga agactcgat atcttgaat tttgatgta 
      gatccaaca cttcgtgat agtttttgg acatttgtg 
      attggtttt acgtttcat tgtacatat tatgtaagt 
      ctttcacaa tctggagtt caaaagtac ttggcacta 
      gcgactttt cgtgactgt atttgggca gtggtattt 
      tatgtgata acaatggaa atagtggaa ctattttgc 
      gtttttctg ggtttgctg gcgtacgga cattatgca 
      aattgtgat cctttcact actggaaaa atacaacgc 
      catgagcag ttactgcct tattacgtt acggaaatt 
      gctggacat attccagga gttaccgga tttacttta 
      gttggattg ttctgtgca acaatgagt acgatatct 
      tcaagtctg aacgccatc tctggtgtc gtttacaaa 
      gattgcctt tcgcgattt ttgaaaaag gatattaca 
      gaaaaagcg tctggcaga attttgaga gtgatcgtt 
      gtaattact ggtatcctg agcatgctt ttaatattt 
      gttttgcaa cacttgggt gatattctt cctgtcgca 
      gtcagtggt gcttccata ggctccgga ccaatatta 
      ggagtattt tttctaggt tttcttttc ccacaagct 
      aacgccaag ggtgccttt tacggagct attgtttca 
      tttgtattc caaaccttc gtactcatt gtctcaaaa 
      atgtatcgg tacaaaaaa atcattgtg gatgttact 
      ttaccattt tctgtaagc ggatgttgg accaatggt 
      tctctggcg agtaacagt acactttct aatggtttc 
      agttcgccc aacaacgtt acaataaat tcggagtta 
      tcacattat tacaactgc atgttaggg cttattgtt 
      acggtaatc gtgggatta attatcagt tatttaaca 
      aacaaaaat gatccccca gttgataaa gaattaatt 
      agtcctgta gttcgtcgt tttgtgaag aaagacaac 
      aaacctgaa attgatagt cgagagctg aaagctcta 
      atgactaaa gaatacaat acacaagga cttgaaaaa 
      tga
    mRNA sequence
    • >TC011236 RA
      aactactac tacaactac gttatagaa taataatta 
      ctatgaaaa cgaatcatg tctgccttc ttctggtac 
      gactatcta attttcttc atagtacta gctatcagt 
      tcctgcacc ggaatttat tatggctgc ttcggaacc 
      aagcaaaaa acaatcaaa gagtacctt ttgggaggc 
      aaaaacatg gctacttgg ccgatcgga atttcggta 
      gctgtaagc cacttttct gcaattacc ataatgggg 
      gcaccgtcc gatatttac aaatttggg gcatattac 
      acctacagt acgatcggt atggcactg ctgggactg 
      atttcaatt tttgtcttt ttccccgtt tttttcaaa 
      ctgcaagtt accaccatt tatgaatat ttggaaaaa 
      cgcttcgat cacaaaacc aaagttttc gcgtcattt 
      ttgtttatt gtgggggag gttgttatc gtttcggtt 
      agcatttat gcaccgtct ttggcactt tcagcagtt 
      actgggatt catgtttat tacataatt atttgtgtg 
      tttggcatt tgtattttc tatactaca atcggaggc 
      ctaaaaacc gtcgtttgg actgatatt ttccaaagt 
      ggagttatt ctcttatct atgtttata atttgtgta 
      atcggtcta aataccact ggaaatttt tcaacgctg 
      tggaaaaca gcactcgac ggtggaaga ctcgatatc 
      ttgaatttt gatgtagat ccaacactt cgtgatagt 
      ttttggaca tttgtgatt ggttttacg tttcattgt 
      acatattat gtaagtctt tcacaatct ggagttcaa 
      aagtacttg gcactagcg acttttcgt gactgtatt 
      tgggcagtg gtattttat gtgataaca atggaaata 
      gtggaacta ttttgcgtt tttctgggt ttgctggcg 
      tacggacat tatgcaaat tgtgatcct ttcactact 
      ggaaaaata caacgccat gagcagtta ctgccttat 
      tacgttacg gaaattgct ggacatatt ccaggagtt 
      accggattt actttagtt ggattgttc tgtgcaaca 
      atgagtacg atatcttca agtctgaac gccatctct 
      ggtgtcgtt tacaaagat tgcctttcg cgatttttg 
      aaaaaggat attacagaa aaagcgtct ggcagaatt 
      ttgagagtg atcgttgta attactggt atcctgagc 
      atgctttta atatttgtt ttgcaacac ttgggtgat 
      attcttcct gtcgcagtc agtggtgct tccataggc 
      tccggacca atattagga gtatttttt ctaggtttt 
      cttttccca caagctaac gccaagggt gccttttac 
      ggagctatt gtttcattt gtattccaa accttcgta 
      ctcattgtc tcaaaaatg tatcggtac aaaaaaatc 
      attgtggat gttacttta ccattttct gtaagcgga 
      tgttggacc aatggttct ctggcgagt aacagtaca 
      ctttctaat ggtttcagt tcgcccaac aacgttaca 
      ataaattcg gagttatca cattattac aactgcatg 
      ttagggctt attgttacg gtaatcgtg ggattaatt 
      atcagttat ttaacaaac aaaaatgat cccccagtt 
      gataaagaa ttaattagt cctgtagtt cgtcgtttt 
      gtgaagaaa gacaacaaa cctgaaatt gatagtcga 
      gagctgaaa gctctaatg actaaagaa tacaataca 
      caaggactt gaaaaatga aatttttat tgattctct 
      gaatatcac attataata atttattat gaacaatta 
      acaaataca tatgcacac acaataatt tttgataat 
      aaagttttg taaaatca
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY