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Gene information
General information
TC013719 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_007420.3: 5408635..5410008
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
    TC013719
    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
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    Email
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    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_02192

    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: 30.0% (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


    adult lethality - Number of animals showing the phenotype: 2 (9 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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

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


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC013719 RA
      MSQITQSEC SKVISAKLK TRDFKILRY QQIEFDEIV 
      GYLGDHCTL EITILRDNH EETYSFFMK SAPRVPSQR 
      TFFEEIDGF SKEKNFFTK FHPMLKRHN IDIIDDVIP 
      ECYLVFDET FILDDLKRK GYVTLPSRS PLAIDCIKA 
      ALASLAKLH ASGLILEET KSCRLTDEF SLKESFYSG 
      QGSAEQALQ SAKGGMRAF CDWAKTDEA LKTRIVSGI 
      EEKKTFAVP SSRFRNTIC HADPWTKNF LFKFEDGKA 
      INCVTVDWQ TYRYGPPAQ DVLAFIYLV ADGDVRKTH 
      FDELLAFYY GELSKAMGK FGFGDVVTR EEFFQSCQY 
      FKQFALTQS LTHFQVVLL SDEDGKELF GNPEKAKSV 
      IFGDDRYEF VQKILAKDP VFRKRVCSS VEELIKLHE 
      EKCN
    CDS sequence
    • >TC013719 RA
      atgagtcaa attacccaa tctgaatgc tccaaagtc 
      ataagtgcg aagctgaaa acgcgcgat tttaaaatt 
      ctgcggtac caacagatc gaattcgac gaaattgtc 
      ggttatttg ggcgaccat tgcaccctt gaaataaca 
      atccttcgg gacaatcat gaagaaact tactcgttt 
      ttcatgaag agtgcccct cgagtgcct tcacagcgc 
      actttcttc gaggaaatt gacggattc tccaaggag 
      aagaacttc ttcaccaag tttcacccg atgctgaag 
      cgccacaac atcgacatt attgacgac gtaatccct 
      gagtgttac ctcgtgttt gacgaaacg tttattctt 
      gatgatctg aagcgtaag ggatatgtg actctccct 
      tctcgcagc cctttggcg atcgattgc attaaagca 
      gctcttgca tcacttgct aaactgcac gccagcggt 
      ctaatttta gaagagacg aaatcttgc cgactcact 
      gacgaattt tcgctcaaa gagagcttt tactcgggt 
      cagggttcc gcggagcaa gctctacag tcggcgaaa 
      ggtggaatg cgagctttc tgcgattgg gcaaaaacc 
      gacgaggct ttaaaaact cggatcgtg tccggaatt 
      gaagagaag aaaactttc gctgtgccg tcgtccagg 
      ttcaggaac accatctgt cacgctgac ccttggacc 
      aagaatttc ttgttcaag tttgaggac gggaaggcg 
      ataaattgc gtcactgtt gattggcag acttaccga 
      tacggaccc ccggcacag gatgtcctc gcttttatt 
      tatttagtg gccgatgga gacgtccgt aagacacac 
      ttcgatgaa ttgttggcg ttttattac ggggagctg 
      agcaaagcg atgggaaag ttcgggttt ggagatgtt 
      gtcacacga gaggagttt ttccaaagc tgtcaatac 
      tttaaacag tttgcgctc acgcagtct ctgacgcac 
      tttcaagtg gttttgttg tcggatgag gacggcaag 
      gagctgttt ggcaatccg gagaaagcc aaaagtgtc 
      atttttggc gacgataga tacgagttc gtccagaaa 
      attctcgcc aaagatccc gtttttagg aaaagagtt 
      tgcagttca gtcgaggag ttaataaag ttacatgag 
      gaaaagtgt aattaa
    mRNA sequence
    • >TC013719 RA
      agagtttac acaaaacct ttcaagccc gaaaataga 
      caatagctg tgctaactt aacacaaag tgcaataaa 
      tcagtgcga ttaaactga ccaagtatt aaaataatt 
      gagagaaat tttttcaac tcagttggt gacaatgag 
      tcaaattac ccaatctga atgctccaa agtcataag 
      tgcgaagct gaaaacgcg cgattttaa aattctgcg 
      gtaccaaca gatcgaatt cgacgaaat tgtcggtta 
      tttgggcga ccattgcac ccttgaaat aacaatcct 
      tcgggacaa tcatgaaga aacttactc gtttttcat 
      gaagagtgc ccctcgagt gccttcaca gcgcacttt 
      cttcgagga aattgacgg attctccaa ggagaagaa 
      cttcttcac caagtttca cccgatgct gaagcgcca 
      caacatcga cattattga cgacgtaat ccctgagtg 
      ttacctcgt gtttgacga aacgtttat tcttgatga 
      tctgaagcg taagggata tgtgactct cccttctcg 
      cagcccttt ggcgatcga ttgcattaa agcagctct 
      tgcatcact tgctaaact gcacgccag cggtctaat 
      tttagaaga gacgaaatc ttgccgact cactgacga 
      attttcgct caaagagag cttttactc gggtcaggg 
      ttccgcgga gcaagctct acagtcggc gaaaggtgg 
      aatgcgagc tttctgcga ttgggcaaa aaccgacga 
      ggctttaaa aactcggat cgtgtccgg aattgaaga 
      gaagaaaac tttcgctgt gccgtcgtc caggttcag 
      gaacaccat ctgtcacgc tgacccttg gaccaagaa 
      tttcttgtt caagtttga ggacgggaa ggcgataaa 
      ttgcgtcac tgttgattg gcagactta ccgatacgg 
      acccccggc acaggatgt cctcgcttt tatttattt 
      agtggccga tggagacgt ccgtaagac acacttcga 
      tgaattgtt ggcgtttta ttacgggga gctgagcaa 
      agcgatggg aaagttcgg gtttggaga tgttgtcac 
      acgagagga gtttttcca aagctgtca atactttaa 
      acagtttgc gctcacgca gtctctgac gcactttca 
      agtggtttt gttgtcgga tgaggacgg caaggagct 
      gtttggcaa tccggagaa agccaaaag tgtcatttt 
      tggcgacga tagatacga gttcgtcca gaaaattct 
      cgccaaaga tcccgtttt taggaaaag agtttgcag 
      ttcagtcga ggagttaat aaagttaca tgaggaaaa 
      gtgtaatta aattaatta tgaaaataa ataattctt 
      ccaaaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY