Status
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Gene information
General information
TC015404 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_007421.3: 427978..429707
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
    TC015404
    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_09142

    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: < 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
    • >TC015404 RA
      MATMRESLI IVLLNYKLI FLLVYPLLL IFLFSLDIF 
      GAKSTGNAW LYITFLMIG FWILEPLPI GVTSLIPLV 
      LFPLLAVLN TKKTCFNYF HDLNMTLIA ALLLGLSAE 
      MCNLHTRTS LRIIKLVGF RYHLLSLFF TILTIAISM 
      FFSNTTTTC FMMVIVKEV LHQMDDMGL AKMWLDEDQ 
      QNPTHLTKG FYLGTAYMA TIGGLGTLM GSGTNLAFH 
      ELVPTNFGV WFALNLLLI ILTAVPTWA ILQYWYLGW 
      GRPSSRDSL AITFTTEEI EIANENLNK KLSQLEKWS 
      HHEIFVLII IIVSVVLLF LRRVTFMNP WPTWITETK 
      VGDATTLTI FTVLLFVVP SRPEFWHIY DKDESKRPI 
      KTSPGLITW KWANQRMHW SLIFVMGGA FALADALDR 
      NGYIKFWDY DALSYDKQI VGVLVTVVV MTQFMANAD 
      LVKIFVPLM VSIGKRFSD VPQMYYMLP VVWCCSFAF 
      VLPVGTPPN AIVGVMGNI KTVEFVKIG LVVLLVAIV 
      MMCAIFFLL VHRIW
    CDS sequence
    • >TC015404 RA
      atggccaca atgagagaa tccttaatc atcgtcctg 
      ctcaactac aaactaatc ttcctttta gtgtatcct 
      ttgctccta atcttcctt ttttccctt gatattttc 
      ggggcgaaa tcaaccgga aacgcctgg ctttacatc 
      accttcctg atgattggt ttctggatc ctggaaccg 
      ctacccatc ggagtcact tccttgatc cccctcgtc 
      ctcttcccc cttctggcg gtcctcaac accaagaaa 
      acctgcttc aactacttc cacgacctc aacatgacc 
      ctaatcgcc gccctcttg ctgggcctt tccgcagaa 
      atgtgcaac ttacacacc agaacctcc cttaggatc 
      atcaaactg gttggtttc aggtaccac ttgctgagc 
      ttgtttttc accattttg acaattgcc atctcgatg 
      tttttctca aacaccacg accacgtgc ttcatgatg 
      gtcatcgtc aaggaggtc ctgcaccag atggacgac 
      atgggcttg gcgaagatg tggctggat gaggaccag 
      cagaaccca acacaccta accaagggc ttctacctt 
      ggtaccgcc tacatggcc accattggc ggcctgggc 
      accctaatg ggcagcggt accaaccta gccttccat 
      gaactagta ccaaccaac ttcggcgtc tggttcgcc 
      ctaaacctc ctcctgatc atcctaaca gcggtacca 
      acttgggcc atcttgcag tactggtac ctggggtgg 
      gggcgcccc agctcacgc gattccctc gccattact 
      ttcacaact gaagaaatc gaaatcgcg aacgaaaac 
      ttaaacaag aaattatcc caactcgaa aaatggtca 
      caccacgaa attttcgtc ctcataata atcatagta 
      agcgtggta ttgctattt ttgcggcgg gtgaccttc 
      atgaaccct tggcccact tggatcacg gaaaccaaa 
      gtcggcgat gctacgacc ttgaccatt ttcaccgtt 
      cttttgttt gtggtgccg tcgcgtccg gaattttgg 
      cacatttat gacaaggac gagagcaag cgtccaatc 
      aaaacatcg cccggtttg atcacgtgg aagtgggcc 
      aatcagagg atgcattgg agtttgatt tttgtgatg 
      ggcggggct ttcgccctc gctgatgcg ctggacagg 
      aatggatat atcaagttt tgggattat gatgctctg 
      agttatgat aagcaaatt gtcggggtt ttggtcact 
      gtggttgtg atgacgcag tttatggcc aacgccgat 
      ttggtgaag atttttgtc ccgttgatg gtttcgatt 
      gggaagagg tttagtgat gttccacaa atgtattac 
      atgttgccg gtggtttgg tgttgcagt tttgcgttt 
      gttcttcct gtgggaacg ccgcctaat gcgattgtt 
      ggggttatg gggaatatc aagacggtt gagtttgtc 
      aaaattgga ttggttgtt ttattggtg gctattgta 
      atgatgtgt gcgattttc tttctacta gtgcacaga 
      atttggtaa
    mRNA sequence
    • >TC015404 RA
      ctgtcacca aaaatcaaa atttgggcc tgaaaatgg 
      ccacaatga gagaatcct taatcatcg tcctgctca 
      actacaaac taatcttcc ttttagtgt atcctttgc 
      tcctaatct tcctttttt cccttgata ttttcgggg 
      cgaaatcaa ccggaaacg cctggcttt acatcacct 
      tcctgatga ttggtttct ggatcctgg aaccgctac 
      ccatcggag tcacttcct tgatccccc tcgtcctct 
      tcccccttc tggcggtcc tcaacacca agaaaacct 
      gcttcaact acttccacg acctcaaca tgaccctaa 
      tcgccgccc tcttgctgg gcctttccg cagaaatgt 
      gcaacttac acaccagaa cctccctta ggatcatca 
      aactggttg gtttcaggt accacttgc tgagcttgt 
      ttttcacca ttttgacaa ttgccatct cgatgtttt 
      tctcaaaca ccacgacca cgtgcttca tgatggtca 
      tcgtcaagg aggtcctgc accagatgg acgacatgg 
      gcttggcga agatgtggc tggatgagg accagcaga 
      acccaacac acctaacca agggcttct accttggta 
      ccgcctaca tggccacca ttggcggcc tgggcaccc 
      taatgggca gcggtacca acctagcct tccatgaac 
      tagtaccaa ccaacttcg gcgtctggt tcgccctaa 
      acctcctcc tgatcatcc taacagcgg taccaactt 
      gggccatct tgcagtact ggtacctgg ggtgggggc 
      gccccagct cacgcgatt ccctcgcca ttactttca 
      caactgaag aaatcgaaa tcgcgaacg aaaacttaa 
      acaagaaat tatcccaac tcgaaaaat ggtcacacc 
      acgaaattt tcgtcctca taataatca tagtaagcg 
      tggtattgc tatttttgc ggcgggtga ccttcatga 
      acccttggc ccacttgga tcacggaaa ccaaagtcg 
      gcgatgcta cgaccttga ccattttca ccgttcttt 
      tgtttgtgg tgccgtcgc gtccggaat tttggcaca 
      tttatgaca aggacgaga gcaagcgtc caatcaaaa 
      catcgcccg gtttgatca cgtggaagt gggccaatc 
      agaggatgc attggagtt tgatttttg tgatgggcg 
      gggctttcg ccctcgctg atgcgctgg acaggaatg 
      gatatatca agttttggg attatgatg ctctgagtt 
      atgataagc aaattgtcg gggttttgg tcactgtgg 
      ttgtgatga cgcagttta tggccaacg ccgatttgg 
      tgaagattt ttgtcccgt tgatggttt cgattggga 
      agaggttta gtgatgttc cacaaatgt attacatgt 
      tgccggtgg tttggtgtt gcagttttg cgtttgttc 
      ttcctgtgg gaacgccgc ctaatgcga ttgttgggg 
      ttatgggga atatcaaga cggttgagt ttgtcaaaa 
      ttggattgg ttgttttat tggtggcta ttgtaatga 
      tgtgtgcga ttttctttc tactagtgc acagaattt 
      ggtaaagtg ttagtcaaa ttcacaaat aaaaaataa 
      aaaaaaat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY