Status
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Gene information
General information
TC000302 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: 13254017..13257869
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
    TC000302
    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_00064

    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: > 50
    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC000302 RA
      MSEKHLYSY DEFKITAEK FKNVEFEEA LEHTGFGKY 
      NLALILICG LTLYGVNSE AYAVGYVLP SAECDLELD 
      TYMKGILTS TNFIGITGT CCIWGYLSD TKGRKSVLT 
      ISLILAFVC SVAAAFVPS FWGFAILRF CNGIFIAGP 
      SAIVYAYFG EFQNRIYRS TAMAWMSLF IALALITLP 
      GLGWSLLPQ HLHLSIFGL TLNSWRLFM LLISIPNLL 
      AAIAFIKLP ESPKFLYHN GQLEEAIQV LRQIYTINT 
      GKPGDTFPV ESLDDKVLL QVDPNKNKN ILMDFWGQI 
      APLFVPPHL KYSLASGVM QGGVFAVSS GVLLWYPDI 
      INQLSHSAN SNVSVTVCQ ALSSVEESA EEAIRCVED 
      NINDQVFIQ NIIIGVAYL VFYVVWGFV VNFLGNRNF 
      FGLCMIVSA VSLVLLNFL THKVLIDVL FVVLLTLPG 
      ICVAVINLL MVDIIPTHL CGMAVCLVM TAGRIGSIV 
      SSSVVGVML QWNCTVTFN LYAVNLIVC LLLIFVFPK 
      HST
    CDS sequence
    • >TC000302 RA
      atgagtgag aaacacttg tactcttat gatgagttt 
      aaaatcaca gctgagaaa ttcaagaat gtcgagttc 
      gaagaggca ctggaacac accggtttt gggaaatac 
      aatttggcc ctaatcctg atctgcggt ttgactctt 
      tatggggtc aacagtgag gcttatgcc gtgggctat 
      gtgctgcca tcggccgaa tgcgacttg gaattggac 
      acttacatg aaagggatt ttaacttct accaatttt 
      attgggatt accggcact tgctgcatc tggggttac 
      ctatcagac acaaaaggg agaaaatcg gtgctcaca 
      attagctta attttggct tttgtctgc agtgtcgct 
      gcggccttc gtgccttcc ttctggggc tttgccatc 
      ctgcgattt tgcaatggg atctttatt gccggccct 
      tctgccatt gtctacgcc tatttcggc gagttccag 
      aaccgcatc taccgctcc accgccatg gcctggatg 
      agcctcttc atagcccta gccctgatc accctcccc 
      ggcctgggc tggtccctc ctcccccag cacctccac 
      ctctccatc ttcggcctc accctcaac tcctggcgc 
      ctgttcatg ctcctcatc agcatcccc aaccttctg 
      gccgccatc gccttcatc aaactcccc gaaagtccc 
      aaattcctc taccacaac ggccaactc gaggaagcc 
      atccaggtc ctccgccag atctataca atcaacacg 
      gggaagcct ggggacacg ttcccggtg gagagcctc 
      gacgataaa gtcctgctc caggtggac cccaacaag 
      aacaaaaac attctgatg gatttttgg gggcaaatc 
      gccccgctt ttcgtgccc ccacattta aaatactcg 
      ctggcttcg ggggtgatg caagggggc gtgttcgcc 
      gtctccagc ggggtgctc ctgtggtac cccgacatc 
      atcaaccag ctctcgcat tcggccaat agcaacgtc 
      agtgtgacg gtttgccag gcgttgtcc tcagttgag 
      gaaagtgca gaggaagca attaggtgt gtggaggac 
      aacatcaat gaccaagtc ttcatccag aatattatc 
      atcggggtt gcgtatttg gtcttttat gttgtgtgg 
      ggctttgtg gtcaatttt ctcgggaac agaaacttt 
      ttcggactt tgtatgatt gtgtcggcc gtttcgctg 
      gttttgctc aattttttg acgcataag gtcctgatt 
      gatgtgctt tttgtcgtg cttttgaca ctgccaggc 
      atttgcgtg gctgttatt aatttactg atggtggat 
      attatcccg actcatctc tgcggcatg gcagtttgt 
      ttggtcatg acagctggg aggattgga agtattgtg 
      tccagttcg gtggttggt gtcatgtta cagtggaat 
      tgtacggtc acttttaat ctatacgct gtcaatctc 
      atagtttgt ttgctactt attttcgtg ttcccgaag 
      cactcgacg tag
    mRNA sequence
    • >TC000302 RA
      gtattattt ttcgaaaag tgtgcaggt tgttgactg 
      tatgagcca ctccttcga gaatttttc ctttcattt 
      aataaaaac caaccaatc attcacacc tagcaaata 
      aaaaggtcg gcaaatcca ccctcgagc caaaagggt 
      tgcttaggt atcttccgg gaaagctcc cgtagcagg 
      acagcagga aaatagcgc aagtgcgaa agctcacgg 
      aatcgataa gataagctt gaattaatt gaatcgact 
      cgtgtttta atatattgg gatttttta cgatttaac 
      ataaatctt tatgctgga gactgcaag agaagggaa 
      tttttttct gtgatgggt ttagtttcg aattaattg 
      atggtacag tgcgtgttt aaagtcttg caggtggct 
      attaacgac atgctgcct tacaatagc cactctatt 
      agggaatta gaaaagtga gaagctccc gagatttta 
      ggggaggat tcagtccga gcgcaatat ttaaacctt 
      aaattccca caaggattt tcaggcaaa attaggcaa 
      aaatgaaat aaatcccac tttattagt cgagattaa 
      agctgaggt ctctcaaac atgagccgc tttgttcca 
      cacaataat gatctcagc aaatagtta aacacagga 
      caatacctg aataaacgt gacaatgtt attgttttg 
      gccatgatg tgaaaatat cgtatattt tatgcggcg 
      aatttttga tggaccgca tgcgtcata ttaattacg 
      ataattatg ctacttgtg acagggatt aaattgttt 
      cttgagtag agaacctaa gtaggctga aatttgctt 
      aaataaaag agcgctttc atgcactcg ctcacattt 
      gtaattcgg caacaaatt agctcgaaa tgagtgaga 
      aacacttgt actcttatg atgagttta aaatcacag 
      ctgagaaat tcaagaatg tcgagttcg aagaggcac 
      tggaacaca ccggttttg ggaaataca atttggccc 
      taatcctga tctgcggtt tgactcttt atggggtca 
      acagtgagg cttatgccg tgggctatg tgctgccat 
      cggccgaat gcgacttgg aattggaca cttacatga 
      aagggattt taacttcta ccaatttta ttgggatta 
      ccggcactt gctgcatct ggggttacc tatcagaca 
      caaaaggga gaaaatcgg tgctcacaa ttagcttaa 
      ttttggctt ttgtctgca gtgtcgctg cggccttcg 
      tgccttcct tctggggct ttgccatcc tgcgatttt 
      gcaatggga tctttattg ccggccctt ctgccattg 
      tctacgcct atttcggcg agttccaga accgcatct 
      accgctcca ccgccatgg cctggatga gcctcttca 
      tagccctag ccctgatca ccctccccg gcctgggct 
      ggtccctcc tcccccagc acctccacc tctccatct 
      tcggcctca ccctcaact cctggcgcc tgttcatgc 
      tcctcatca gcatcccca accttctgg ccgccatcg 
      ccttcatca aactccccg aaagtccca aattcctct 
      accacaacg gccaactcg aggaagcca tccaggtcc 
      tccgccaga tctatacaa tcaacacgg ggaagcctg 
      gggacacgt tcccggtgg agagcctcg acgataaag 
      tcctgctcc aggtggacc ccaacaaga acaaaaaca 
      ttctgatgg atttttggg ggcaaatcg ccccgcttt 
      tcgtgcccc cacatttaa aatactcgc tggcttcgg 
      gggtgatgc aagggggcg tgttcgccg tctccagcg 
      gggtgctcc tgtggtacc ccgacatca tcaaccagc 
      tctcgcatt cggccaata gcaacgtca gtgtgacgg 
      tttgccagg cgttgtcct cagttgagg aaagtgcag 
      aggaagcaa ttaggtgtg tggaggaca acatcaatg 
      accaagtct tcatccaga atattatca tcggggttg 
      cgtatttgg tcttttatg ttgtgtggg gctttgtgg 
      tcaattttc tcgggaaca gaaactttt tcggacttt 
      gtatgattg tgtcggccg tttcgctgg ttttgctca 
      attttttga cgcataagg tcctgattg atgtgcttt 
      ttgtcgtgc ttttgacac tgccaggca tttgcgtgg 
      ctgttatta atttactga tggtggata ttatcccga 
      ctcatctct gcggcatgg cagtttgtt tggtcatga 
      cagctggga ggattggaa gtattgtgt ccagttcgg 
      tggttggtg tcatgttac agtggaatt gtacggtca 
      cttttaatc tatacgctg tcaatctca tagtttgtt 
      tgctactta ttttcgtgt tcccgaagc actcgacgt 
      agcaaaacg cgggcaaga ttatttatt gtgataaac 
      tttagatta atgaaaata tatttatat tttttaaaa 
      taaacaatt tgttttcct
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY