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Gene information
General information
TC014031 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: 4510389..4522086
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
    TC014031
    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_09990

    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)

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


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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
    • >TC014031 RA
      MADKKADQF YTRPPKLGK WEGFKIFLW NPETSQFLG 
      RTGSSWGKI LLFYLIFYA VLVGFFAAM LAVFYQTLD 
      DTKPKWQGD NSLIGSNPG LGFRPMPPD SNVESTLIW 
      YKTGEPKNV QYWIDELDK FLEPYQQQT TSENVQNCD 
      NRDKPDEGK FCDFKVTNA IAPCNKDYG YGFGSKEGG 
      GPCIFLKLN KIFGWVPDY YTNATAPSN MPKHLRDHI 
      AKEEMTGQH HVVWVDCEG ENPADVENI GPIYYFPQR 
      GFKAKYFPF TNVKGYVSP LVAVHFEKP TRGVLINIE 
      CKAWARNIH HDRVDRRGS VHFELMVD
    CDS sequence
    • >TC014031 RA
      atggcggac aaaaaagcc gaccagttt tacacacgg 
      cccccaaaa cttggcaaa tgggagggc ttcaaaatc 
      ttcctgtgg aaccccgaa accagccag tttctaggc 
      aggaccgga tccagttgg ggaaagatc ctcctgttt 
      tatctcatc ttctatgcc gttctggtc ggtttcttt 
      gctgccatg ttggcggtg ttttaccag acgttggac 
      gacaccaag ccgaaatgg caaggagat aactctcta 
      atcggtagc aatcctggg ctgggattc agaccaatg 
      ccgccagac tccaacgtt gagagtacc ttgatttgg 
      tacaaaact ggggagccc aaaaacgtc cagtattgg 
      attgatgaa ctggacaag tttttggaa ccttatcag 
      caacaaact acttccgaa aacgtgcaa aactgcgat 
      aatcgagac aaaccagac gagggaaag ttctgcgat 
      tttaaagtc accaatgcc atcgccccc tgtaacaag 
      gactatggt tacgggttc gggagtaaa gaaggggga 
      ggcccttgc attttcctt aaactgaat aaaattttt 
      gggtgggtt cccgactac tacaccaat gcaacagcc 
      cccagtaac atgcccaag catttgaga gaccacatt 
      gccaaggag gagatgact ggacaacac cacgtcgtt 
      tgggtcgat tgcgaaggg gagaaccca gctgatgtg 
      gaaaacatc ggtccaatt tactacttc ccacagaga 
      gggttcaaa gctaaatat ttccccttt accaatgtt 
      aagggctat gtgagtcct ttagtggcg gtgcatttc 
      gaaaaacca acacgcggc gtcctgatt aacatcgaa 
      tgcaaagca tgggcgcgc aacatccac catgaccgc 
      gtggacaga agaggttct gtccatttc gagctgatg 
      gtcgactaa
    mRNA sequence
    • >TC014031 RA
      cggggagcg tcgcggttc atcctccat cgaagaagg 
      tgcaagtag tgtgtgcag gaagagtac catggcgga 
      caaaaaagc cgaccagtt ttacacacg gcccccaaa 
      acttggcaa atgggaggg cttcaaaat cttcctgtg 
      gaaccccga aaccagcca gtttctagg caggaccgg 
      atccagttg gggaaagat cctcctgtt ttatctcat 
      cttctatgc cgttctggt cggtttctt tgctgccat 
      gttggcggt gttttacca gacgttgga cgacaccaa 
      gccgaaatg gcaaggaga taactctct aatcggtag 
      caatcctgg gctgggatt cagaccaat gccgccaga 
      ctccaacgt tgagagtac cttgatttg gtacaaaac 
      tggggagcc caaaaacgt ccagtattg gattgatga 
      actggacaa gtttttgga accttatca gcaacaaac 
      tacttccga aaacgtgca aaactgcga taatcgaga 
      caaaccaga cgagggaaa gttctgcga ttttaaagt 
      caccaatgc catcgcccc ctgtaacaa ggactatgg 
      ttacgggtt cgggagtaa agaaggggg aggcccttg 
      cattttcct taaactgaa taaaatttt tgggtgggt 
      tcccgacta ctacaccaa tgcaacagc ccccagtaa 
      catgcccaa gcatttgag agaccacat tgccaagga 
      ggagatgac tggacaaca ccacgtcgt ttgggtcga 
      ttgcgaagg ggagaaccc agctgatgt ggaaaacat 
      cggtccaat ttactactt cccacagag agggttcaa 
      agctaaata tttcccctt taccaatgt taagggcta 
      tgtgagtcc tttagtggc ggtgcattt cgaaaaacc 
      aacacgcgg cgtcctgat taacatcga atgcaaagc 
      atgggcgcg caacatcca ccatgaccg cgtggacag 
      aagaggttc tgtccattt cgagctgat ggtcgacta 
      aatcgaagc gagtgggct ctaccaact gccatagtt 
      accggagag agtcgaaca tcaccagtg acggtctag 
      ttagacttt agttaaaaa aaccaaaaa aaaattagt 
      tcaaatcgt attgtctta gagcagcgc aattgaatt 
      tttgaccct ctattgcta gtagtgtga cggaatttc 
      ggtcatcgg atccagaca gtagcgcca ccgcattac 
      acaaaaatc ataggtttt tcacaatag tgtacaata 
      attgttgag tattttatt tccgcctgt gtagcgcgg 
      agagatgtt tcaaaagtg tgtggactt cgacgcact 
      ctgtttcat gtttgtgat aggagcgaa tgtgtttca 
      ttcttgagt tcgctaaat tcgagtttt gtacataag 
      tttctcgtt cactttttc cgttcaccg tactcagtg 
      ttgagcatt gttctgtcg cagaacgac gttgaaaac 
      atacaaaaa aattaaaat tgttattaa aaataataa 
      taattaaaa aatagtaac tactaaatg ttatatctg 
      tacttcata tatagttta ggtaggtct agggacatt 
      cagatttat tatacaagt acttaagcg cgttttttt 
      catcatgac ttagttcag tatcggcat tcattaacg 
      cacaagggg agaacgcca aggattttc ggaccagcc 
      taataatgc cgatactga atcacttat tagggtttt 
      atcgttttt cgatttcga gttcggcca ccatcaagt 
      gaaattaat tcaattctg ttttgatgc atagttatg 
      taaataaaa gaaatcaat tccatctgt gcttggatt 
      tgaaactaa ttattggtt ttgatgcgt gtgcacatg 
      taacgatta tttgtgctt atgtaattt ttttaaaaa 
      actaataaa aatactaat aaatc
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY