Status
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Gene information
General information
TC011306 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: 3115925..3119618
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
    TC011306
    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_10742

    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: % (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
    • >TC011306 RA
      MTATKSLKE IPPIYLRVH LTVLQILGI DILPVESVP 
      QNLFYTYTA LIISTMCLF TIAEFLDMV LNYEDIYRL 
      TFGLCYCVT HVLGTVKMF LMLYLRKKL WGNLTTLEE 
      GIFKPNPTR GGPEELQIV NDAITMCNR QGYVFYTLV 
      FLIIGARLL YASLANWPY DKHNYFDGN VTVIVNTKE 
      MPYTTWMPF DYNDSPLYE TIFAFQIFS TTVYGFYIG 
      AADAVICGF MMLIKAQFL IVKRELETL IERAQKAAI 
      AENPDNEDN FGREIERIE LLDKRTQDY VAKYANECV 
      YHHQELIAL CDHAEEDFC YLMLLQFIS SLLIVCFQL 
      FQVSTLSPD SVEFFSMVC YLLLMLFQL LCYCWHGNE 
      VQIVSGELS RYAFGINWI IMRESPKKT LLLLMMRAQ 
      RPCYFTAGK FSLLSLQTF MTIVRGAGS YFMFLRQMN 
      I
    CDS sequence
    • >TC011306 RA
      atgaccgca acgaaaagc ctcaaagaa atcccacct 
      atctacctc agagtccac ctaacggtg ctccaaatc 
      ctaggaata gacatcctt cctgttgaa agcgtcccc 
      caaaaccta ttttacacc tacacggcc cttatcatt 
      tccacaatg tgtcttttc accatcgcc gaattctta 
      gacatggtg ttgaactac gaagacatc tacagactc 
      accttcggc ctttgctac tgcgtgacg cacgtttta 
      ggcacagtt aaaatgttc ctgatgttg tatctgcgt 
      aagaaattg tggggcaac ttaaccacg ctcgaagaa 
      ggcattttc aagccgaat ccgacacga ggcggacct 
      gaggagctc caaatagtc aacgatgct ataaccatg 
      tgcaaccga caaggctac gtcttttac actttggtg 
      tttttgata attggggcc cgccttttg tacgcttct 
      ctggctaac tggccctac gacaaacac aattatttc 
      gacggaaac gtgactgtg atagtcaac acgaaggag 
      atgccctac accacctgg atgcccttc gactacaac 
      gacagcccc ctatatgaa accatcttc gcgttccag 
      attttcagc acgacggtt tatgggttt tacattggg 
      gctgcagat gccgtcatt tgcgggttt atgatgctg 
      attaaagcg cagtttttg attgtgaaa agggagctc 
      gagactttg attgaaagg gcacaaaag gcggcaatt 
      gcggaaaac ccagacaat gaagataat ttcggtcga 
      gagattgaa cgaatcgag ttgttggat aagcggacg 
      caagactat gttgccaag tacgccaat gagtgtgtt 
      tatcaccac caggagttg atcgcgttg tgcgaccac 
      gccgaggag gatttttgc tacttgatg cttctgcag 
      tttatttcc agtttgttg attgtgtgt tttcagttg 
      tttcaagtg agtacgttg tcccccgac agtgtggaa 
      tttttcagt atggtgtgt tatttgctc ctcatgttg 
      tttcaactt ttgtgctac tgttggcat gggaatgag 
      gtgcaaatt gtgagcggg gaattgtca agatacgct 
      tttgggatt aattggatc attatgaga gagtcgccg 
      aagaaaact ctcctgctt ttaatgatg agggcgcaa 
      aggccgtgt tatttcacg gctgggaaa ttctcgctc 
      ttgtccttg cagacattc atgacgatc gtgagaggg 
      gcaggctcg tatttcatg tttttgagg caaatgaat 
      atttaa
    mRNA sequence
    • >TC011306 RA
      aaacagata ttacagtga ttacaccga attttacgt 
      atttaaagc aaaaataga caaaatcta gttcagttg 
      aaccaaaat gaccgcaac gaaaagcct caaagaaat 
      cccacctat ctacctcag agtccacct aacggtgct 
      ccaaatcct aggaataga catccttcc tgttgaaag 
      cgtccccca aaacctatt ttacaccta cacggccct 
      tatcatttc cacaatgtg tcttttcac catcgccga 
      attcttaga catggtgtt gaactacga agacatcta 
      cagactcac cttcggcct ttgctactg cgtgacgca 
      cgttttagg cacagttaa aatgttcct gatgttgta 
      tctgcgtaa gaaattgtg gggcaactt aaccacgct 
      cgaagaagg cattttcaa gccgaatcc gacacgagg 
      cggacctga ggagctcca aatagtcaa cgatgctat 
      aaccatgtg caaccgaca aggctacgt cttttacac 
      tttggtgtt tttgataat tggggcccg ccttttgta 
      cgcttctct ggctaactg gccctacga caaacacaa 
      ttatttcga cggaaacgt gactgtgat agtcaacac 
      gaaggagat gccctacac cacctggat gcccttcga 
      ctacaacga cagccccct atatgaaac catcttcgc 
      gttccagat tttcagcac gacggttta tgggtttta 
      cattggggc tgcagatgc cgtcatttg cgggtttat 
      gatgctgat taaagcgca gtttttgat tgtgaaaag 
      ggagctcga gactttgat tgaaagggc acaaaaggc 
      ggcaattgc ggaaaaccc agacaatga agataattt 
      cggtcgaga gattgaacg aatcgagtt gttggataa 
      gcggacgca agactatgt tgccaagta cgccaatga 
      gtgtgttta tcaccacca ggagttgat cgcgttgtg 
      cgaccacgc cgaggagga tttttgcta cttgatgct 
      tctgcagtt tatttccag tttgttgat tgtgtgttt 
      tcagttgtt tcaagtgag tacgttgtc ccccgacag 
      tgtggaatt tttcagtat ggtgtgtta tttgctcct 
      catgttgtt tcaactttt gtgctactg ttggcatgg 
      gaatgaggt gcaaattgt gagcgggga attgtcaag 
      atacgcttt tgggattaa ttggatcat tatgagaga 
      gtcgccgaa gaaaactct cctgctttt aatgatgag 
      ggcgcaaag gccgtgtta tttcacggc tgggaaatt 
      ctcgctctt gtccttgca gacattcat gacgatcgt 
      gagaggggc aggctcgta tttcatgtt tttgaggca 
      aatgaatat ttaaaaaat tacacaaga ttttgaaca 
      cttctacga aacacagtt gtatttttg ctcaacact 
      gtcttaaaa aattgttac ctttacaca actttgtaa 
      tgagggttt gaataactg ttcacaaac gcaaaataa 
      aaaacaata gcagat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY