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Gene information
General information
TC011687 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_007424.3: 15095786..15096993
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
    TC011687
    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_01875

    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: 40.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    Fertility
    egg production: number no/almost no eggs -
    tropharium size decreased - Number of animals showing the phenotype: 4

    vitellogenic egg chamber number decreased - Number of animals showing the phenotype: 4
    vitellogenic egg chamber shape rounded - Number of animals showing the phenotype: 3

    fertility after larval injection decreased (no living offspring) -
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011687 RA
      MGENQQSRF EKSLGLLTT KFVNLLQKS TGGVLDLKV 
      AADLLAVRQ KRRIYDITN VLEGIGLIE KKSKNSIQW 
      KPYTYKDAL PGCNTQEFA LKVTNLKKE LAKLDEFEQ 
      ELDKHKLWI EQSIRNTTE DIQTKRYLY VNNEDLSKV 
      FMEDETVIL LNAPTDVTT IGYQKNANN ANFLKVQSK 
      GSPIIANIL SLAPEPEIR VPRKRPKAS VKTESEEPE 
      SKKSHYDED VHGDLIAAE ILFRKISSD IGKESNDCE 
      DLLAEKGLY PLIDLSPLG YNQDYAFGL LEEEGISDL 
      FDVTSIPVQ
    CDS sequence
    • >TC011687 RA
      atgggcgaa aaccagcaa agcagattc gagaaatcc 
      ctcggttta ctcaccacc aagtttgta aacttgtta 
      caaaaatca accggtggt gttttggac ctgaaagtg 
      gcggctgat ttactcgcc gtgcggcaa aagcggcgc 
      atttacgac ataaccaac gtcctcgaa ggcatcggt 
      ctgatcgaa aagaagagc aaaaacagt attcagtgg 
      aagccctac acgtacaag gacgcgctc ccgggctgc 
      aacacgcaa gagttcgcc ttgaaagtg accaatttg 
      aagaaagaa cttgcaaaa cttgacgag tttgagcaa 
      gagctggac aaacacaag ctgtggatt gagcaaagc 
      ataaggaac acgaccgaa gacatccaa accaagcgc 
      tacctgtac gtgaacaat gaggacctg tccaaggtt 
      ttcatggaa gatgagacg gttattttg ctaaatgcg 
      cccactgat gtcaccacg attggttac caaaaaaat 
      gcaaacaat gccaatttt ctcaaagtc cagtccaag 
      ggaagccca attatcgca aacatttta agtctagcc 
      ccggagccc gaaattcgg gttccgagg aaacggccc 
      aaggccagt gttaagacg gaaagtgag gagccagag 
      agcaagaaa agccactat gatgaggac gttcatggt 
      gacttgatt gcggctgaa atacttttc aggaaaatt 
      tctagtgat attggcaag gagagcaac gattgtgag 
      gatttactg gctgaaaaa gggttgtac ccactgatt 
      gatttgagc cccttgggt tataaccaa gattacgcg 
      ttcggtttg ttagaagaa gagggcatt agtgatctg 
      tttgacgtc acgtcgatt cctgtacag tag
    mRNA sequence
    • >TC011687 RA
      cacggccgc gcacttggc gttatttgc actgggtta 
      tggttgaat tttttgacc catttcaat tcccaacgt 
      tttgtaagt aatgtgtgc cccaaaatg ggcgaaaac 
      cagcaaagc agattcgag aaatccctc ggtttactc 
      accaccaag tttgtaaac ttgttacaa aaatcaacc 
      ggtggtgtt ttggacctg aaagtggcg gctgattta 
      ctcgccgtg cggcaaaag cggcgcatt tacgacata 
      accaacgtc ctcgaaggc atcggtctg atcgaaaag 
      aagagcaaa aacagtatt cagtggaag ccctacacg 
      tacaaggac gcgctcccg ggctgcaac acgcaagag 
      ttcgccttg aaagtgacc aatttgaag aaagaactt 
      gcaaaactt gacgagttt gagcaagag ctggacaaa 
      cacaagctg tggattgag caaagcata aggaacacg 
      accgaagac atccaaacc aagcgctac ctgtacgtg 
      aacaatgag gacctgtcc aaggttttc atggaagat 
      gagacggtt attttgcta aatgcgccc actgatgtc 
      accacgatt ggttaccaa aaaaatgca aacaatgcc 
      aattttctc aaagtccag tccaaggga agcccaatt 
      atcgcaaac attttaagt ctagccccg gagcccgaa 
      attcgggtt ccgaggaaa cggcccaag gccagtgtt 
      aagacggaa agtgaggag ccagagagc aagaaaagc 
      cactatgat gaggacgtt catggtgac ttgattgcg 
      gctgaaata cttttcagg aaaatttct agtgatatt 
      ggcaaggag agcaacgat tgtgaggat ttactggct 
      gaaaaaggg ttgtaccca ctgattgat ttgagcccc 
      ttgggttat aaccaagat tacgcgttc ggtttgtta 
      gaagaagag ggcattagt gatctgttt gacgtcacg 
      tcgattcct gtacagtag cattaattt gggttaaaa 
      ctatttgta ataattcat gatgtagaa tttaataaa 
      ttctttttt ctata
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY