Status
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Gene information
General information
TC000802 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_007417.3: 5852669..5854398
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
    TC000802
    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
    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_08889

    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: 10.0% (includes death as pupa, adult)

    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: < 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
    • >TC000802 RA
      MNTPLTLFF PILFLKSTL CTIKLQEQF SWSVLDYEY 
      TDDIERTKA IATKRFVPE NNLPVGIEV WNEKLFVTV 
      PRWRVGVPS TLNYIPLDQ AKGAKSPLL IPYPNWDFN 
      EFGNCENGL TTVYRIKAD ACDRLWVLD TGTFGIGNT 
      TQNPCPYAL NIFDLTTNK RLRRYELRP EDTNPNTFI 
      ANIAVDLGR TCEDAFAYL SDELGYGLI VYSWEENKS 
      WRFTHGFFM PDPLAGDFN IGGLNFQWD TEGVFGLAL 
      SPLLATGER VLYFSPLAS NREFAVSTR VLRNSSKVG 
      DSYHDFVAL AERGPDSHV TAKVMSEDG VQLFNLIDR 
      NAIGCWNSR TSYEPANIG IVDFDETEL LFPSDIKID 
      RYGYVWVMS DRMSNFLLS QLDFNDVNF RIFVAPFGV 
      LVSGTVCDA KTAQFVI
    CDS sequence
    • >TC000802 RA
      atgaacact cccttaact ctatttttc cccatactt 
      ttccttaaa agtactctt tgtacaatc aaactacaa 
      gaacaattc agttggtcg gtgttagac tacgagtac 
      acggatgat attgagcga actaaagcc attgcaacg 
      aaacgattc gttccggaa aataatctc ccagttggg 
      attgaagtc tggaacgaa aaactcttc gtcacggtg 
      ccccgatgg agagttgga gtcccttcg accctgaat 
      tacatcccg ctcgaccaa gcaaagggc gcaaaatcc 
      cccctgttg atcccttac cccaactgg gatttcaac 
      gagttcgga aattgcgaa aacggtctg actacagtt 
      taccgaatc aaagccgat gcttgtgac cgcctttgg 
      gttctcgac actggaact ttcggtatc ggaaacaca 
      acccaaaac ccgtgtcct tacgccctc aatattttc 
      gatttaaca acaaacaag cgactcaga cggtacgag 
      ttacgacct gaagacaca aacccaaac acatttatc 
      gctaatata gcggtagac cttggaaga acctgtgaa 
      gatgccttc gcctacttg agcgacgaa ctcggctat 
      gggctaatt gtgtattcc tgggaggaa aataagtct 
      tggaggttc actcatggc tttttcatg ccggacccc 
      ctagctggg gattttaac atcggaggg ttgaacttc 
      cagtgggac actgagggg gtttttgga ctcgcttta 
      tcgccattg ttagccacg ggggagcgc gttttgtat 
      ttcagtcct ttggcgagt aatcgcgag tttgcagtg 
      tccacgaga gttctgagg aacagctca aaggttggg 
      gacagttac cacgatttt gtcgctttg gctgagaga 
      ggacccgac tcgcatgta acggcaaaa gtgatgagt 
      gaggacgga gttcagtta tttaactta attgacaga 
      aatgcgatc ggttgctgg aacagccgg acttcttac 
      gaacccgcc aacatcgga attgttgat tttgacgaa 
      actgagcta cttttcccc tcggatatc aaaatagac 
      cgttatgga tatgtgtgg gtcatgtct gaccgcatg 
      tcgaatttt ttgctgtca caactggac tttaacgat 
      gttaatttt cgtattttt gtggctcct ttcggagtc 
      ctcgtttcg gggaccgtt tgtgacgcg aaaactgca 
      cagtttgta atttga
    mRNA sequence
    • >TC000802 RA
      agattaaaa tatgaacac tcccttaac tctattttt 
      ccccatact tttccttaa aagtactct ttgtacaat 
      caaactaca agaacaatt cagttggtc ggtgttaga 
      ctacgagta cacggatga tattgagcg aactaaagc 
      cattgcaac gaaacgatt cgttccgga aaataatct 
      cccagttgg gattgaagt ctggaacga aaaactctt 
      cgtcacggt gccccgatg gagagttgg agtcccttc 
      gaccctgaa ttacatccc gctcgacca agcaaaggg 
      cgcaaaatc ccccctgtt gatccctta ccccaactg 
      ggatttcaa cgagttcgg aaattgcga aaacggtct 
      gactacagt ttaccgaat caaagccga tgcttgtga 
      ccgcctttg ggttctcga cactggaac tttcggtat 
      cggaaacac aacccaaaa cccgtgtcc ttacgccct 
      caatatttt cgatttaac aacaaacaa gcgactcag 
      acggtacga gttacgacc tgaagacac aaacccaaa 
      cacatttat cgctaatat agcggtaga ccttggaag 
      aacctgtga agatgcctt cgcctactt gagcgacga 
      actcggcta tgggctaat tgtgtattc ctgggagga 
      aaataagtc ttggaggtt cactcatgg ctttttcat 
      gccggaccc cctagctgg ggattttaa catcggagg 
      gttgaactt ccagtggga cactgaggg ggtttttgg 
      actcgcttt atcgccatt gttagccac gggggagcg 
      cgttttgta tttcagtcc tttggcgag taatcgcga 
      gtttgcagt gtccacgag agttctgag gaacagctc 
      aaaggttgg ggacagtta ccacgattt tgtcgcttt 
      ggctgagag aggacccga ctcgcatgt aacggcaaa 
      agtgatgag tgaggacgg agttcagtt atttaactt 
      aattgacag aaatgcgat cggttgctg gaacagccg 
      gacttctta cgaacccgc caacatcgg aattgttga 
      ttttgacga aactgagct acttttccc ctcggatat 
      caaaataga ccgttatgg atatgtgtg ggtcatgtc 
      tgaccgcat gtcgaattt tttgctgtc acaactgga 
      ctttaacga tgttaattt tcgtatttt tgtggctcc 
      tttcggagt cctcgtttc ggggaccgt ttgtgacgc 
      gaaaactgc acagtttgt aatttgaaa ataaaaaat 
      taaatggag t
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY