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Gene information
General information
TC012664 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: 12683916..12685625
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
    TC012664
    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
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    Name
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    Email
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    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05290

    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)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    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: 1 (9 dpi)
    Days post injection


    Fertility
    ovary without detectable defects - Number of animals showing the phenotype: 2
    vitellogenic egg chamber late mostlynot present - Number of animals showing the phenotype: 2

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 50
    About 20
    embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    embryo/egg with embryonic tissue, no cuticle, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

    larval musculature irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    about 50

    egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    larva dorsal not closed - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larva shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larva circumference irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    larva appendages shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larva everted (inside-out) - Penetrance (percentage of animals/eggs on slide): less than 30%

    larva cuticularisation decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    legs shortened - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    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: 100.0% (includes death as larva, prepupa, pupa, adult)

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


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection


    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection



    eclosion not fulfilled (not completely eclosed) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection


    Pupal morphology
    antenna orientation irregular - Number of animals showing the phenotype: 4

    eyes surface opaque - Number of animals showing the phenotype: 7

    Comment: the eyes are partially covered with a sheet exept for median line
    wings shortened - Number of animals showing the phenotype: 6

    wings orientation irregular - Number of animals showing the phenotype: 6
    legs orientation irregular - Number of animals showing the phenotype: 4
    wings ventral not closed - Number of animals showing the phenotype: 6
    female genital lobes rounded - Number of animals showing the phenotype: 6

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC012664 RA
      MADTTENLD NSGSLNPPI TMKVDAPAE EDKTEAGDN 
      EKNAKNEEF KTCTPDRIP VTSVTTNPF ATSQNKLAT 
      RGILKPPQL SLNNANNSA KPAVILNPS RLNPFAKPT 
      NDGAKEESK TVQLNGETP KFVPLVQTE PKTNSTQPV 
      VTTASTTLS TTSFVFGQN LQDRVVGSD AKADEPKPS 
      TSLNSNGTS EMLFSSAIK SEGKTDGTI TSKETKSLS 
      ESAREYEES RANKRKYEE VEIITGEEN ETNILNINC 
      KLFAFDKAS GSWQERGRG VLRLNDFEG EGHAQSRLL 
      FRTTGIWRV ILNTKIWAE MTVEQASEK SVRFTAMDP 
      QGVIKVFLV MASIEDSKQ LYSQIQLRV QKEIAAQKH 
      KKLNVDKDS GGN
    CDS sequence
    • >TC012664 RA
      atggcggat accacagaa aatttggac aatagtggt 
      agccttaac cccccaata acaatgaaa gtggatgca 
      ccagcggaa gaagacaaa acagaagct ggtgacaac 
      gagaaaaac gccaagaac gaagaattc aaaacgtgc 
      actcctgat agaattcca gtaacaagt gttacaaca 
      aacccgttc gctacttca caaaacaaa ttggcaacg 
      cgtggcatt ttgaagcct cctcagttg agtctaaac 
      aacgctaac aattccgca aaaccggct gttattcta 
      aatccgagt cgactgaac ccgtttgct aaaccaaca 
      aatgatggc gccaaggaa gagagcaaa actgttcaa 
      ttgaacggg gaaacacca aaattcgta ccactggtg 
      caaacagaa ccaaaaacg aactcaact cagccggtt 
      gtaacaacg gccagcaca accctctcg acaacttcc 
      ttcgttttt ggacagaac ctacaggac cgtgttgtg 
      ggcagtgac gcgaaagcg gacgaacct aaaccttcg 
      actagttta aattccaat gggacgtcg gaaatgctc 
      tttagcagc gctattaag agtgagggc aaaactgat 
      ggaaccatt accagtaaa gaaacgaag tcgttgagt 
      gagtcggcg agggagtac gaggagtcg agggccaat 
      aagaggaag tacgaagag gtggaaatt atcacgggg 
      gaagagaac gaaacgaat attttaaac attaattgt 
      aaattgttc gcgtttgat aaggcgtct gggagttgg 
      caggagagg ggccgaggg gttttaagg ctgaacgac 
      tttgagggc gaagggcac gcgcaaagt cggctgctt 
      ttccggaca acggggatt tggagggtt atactgaac 
      accaaaatt tgggcggaa atgactgta gaacaggct 
      agtgagaaa agcgtgcgg ttcacggcg atggacccg 
      caaggtgtg atcaaagtt ttcctcgta atggctagt 
      attgaagat agtaaacaa ctgtactca cagatccag 
      cttagagtg cagaaagaa atagcagcc caaaaacat 
      aaaaaactt aatgtagat aaagactca gggggcaat 
      taa
    mRNA sequence
    • >TC012664 RA
      agctggttg attagaaaa atggcggat accacagaa 
      aatttggac aatagtggt agccttaac cccccaata 
      acaatgaaa gtggatgca ccagcggaa gaagacaaa 
      acagaagct ggtgacaac gagaaaaac gccaagaac 
      gaagaattc aaaacgtgc actcctgat agaattcca 
      gtaacaagt gttacaaca aacccgttc gctacttca 
      caaaacaaa ttggcaacg cgtggcatt ttgaagcct 
      cctcagttg agtctaaac aacgctaac aattccgca 
      aaaccggct gttattcta aatccgagt cgactgaac 
      ccgtttgct aaaccaaca aatgatggc gccaaggaa 
      gagagcaaa actgttcaa ttgaacggg gaaacacca 
      aaattcgta ccactggtg caaacagaa ccaaaaacg 
      aactcaact cagccggtt gtaacaacg gccagcaca 
      accctctcg acaacttcc ttcgttttt ggacagaac 
      ctacaggac cgtgttgtg ggcagtgac gcgaaagcg 
      gacgaacct aaaccttcg actagttta aattccaat 
      gggacgtcg gaaatgctc tttagcagc gctattaag 
      agtgagggc aaaactgat ggaaccatt accagtaaa 
      gaaacgaag tcgttgagt gagtcggcg agggagtac 
      gaggagtcg agggccaat aagaggaag tacgaagag 
      gtggaaatt atcacgggg gaagagaac gaaacgaat 
      attttaaac attaattgt aaattgttc gcgtttgat 
      aaggcgtct gggagttgg caggagagg ggccgaggg 
      gttttaagg ctgaacgac tttgagggc gaagggcac 
      gcgcaaagt cggctgctt ttccggaca acggggatt 
      tggagggtt atactgaac accaaaatt tgggcggaa 
      atgactgta gaacaggct agtgagaaa agcgtgcgg 
      ttcacggcg atggacccg caaggtgtg atcaaagtt 
      ttcctcgta atggctagt attgaagat agtaaacaa 
      ctgtactca cagatccag cttagagtg cagaaagaa 
      atagcagcc caaaaacat aaaaaactt aatgtagat 
      aaagactca gggggcaat taaattgtt tactaaata 
      aaacatttt cacggtacc attgtgcag agttcattt 
      tgataaaac tacaaatgt gatgtaaat taagtttta 
      atctttaaa cagtaacgt ttttacaga agttttgtc 
      acgctcatc gattctagt tatttaaaa tctaaaagt 
      atcatttaa ttggatgtg ttatatttt gtaatgata 
      agcaataaa actttgaaa aaagt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY