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Gene information
General information
TC012276 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: 3673328..3676346
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
    TC012276
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05205

    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 (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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    Pupal morphology
    oblique dorsal thoracic muscles median slightlysplit - Number of animals showing the phenotype: 2

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC012276 RA
      MWHFTCITI VTFFQIASG LNNFDVPAL YQITEPLTH 
      GECPSWDSR NNLLYFVDI QKGQIYSYN YTNKELTSI 
      ILNGSVAPV VQSKSDPNL LIVGLDRSI VAVKWDREN 
      GNYTSKTLV TVAEDKPDS TMNDGKADR RGRIWFGTM 
      DYDADTKNH PDKGSLYKV TKNSVSTPQ PVITPVNVS 
      NGMAWNKAN NKFYYIDSP TRQIFEYDY DDVKGEISN 
      RRVVFDLRD YNLTASPDG MTIDVDDNL WVALFGGGS 
      VIKVNPKTG QLLNRYPIP AECVTSVMW GGPELDILF 
      VTTSKLRLS DEEILKQPG AGCVFALTN LGTKGFPVF 
      EADLIDSI
    CDS sequence
    • >TC012276 RA
      atgtggcac tttacttgc atcacaata gttacgttt 
      ttccaaata gcttcagga ttaaacaac ttcgacgtt 
      cccgctttg tatcagatt acggagccg ctaactcat 
      ggagagtgt ccgtcatgg gacagcaga aacaatctt 
      ctctacttt gttgacatt cagaaagga caaatttac 
      agctataac tacacaaac aaggaacta acatccata 
      atactaaac gggtcagtt gcaccagtt gtccagtcc 
      aaatcagac ccaaatctt cttattgtt ggcctcgac 
      cgctccatt gttgcagtt aaatgggac agagaaaat 
      ggaaattac acaagtaaa acacttgtt acagtagct 
      gaagataaa ccagactcg accatgaat gatggaaag 
      gccgacagg agaggacgg atttggttc ggaacaatg 
      gattacgat gctgatact aaaaatcat ccagataaa 
      gggagtctc tacaaagtg acgaaaaac agtgtttca 
      acacctcag ccggtaatt actcccgtt aatgtaagt 
      aacggaatg gcctggaat aaagcaaac aacaagttt 
      tattacatc gattcccca actcgccaa attttcgaa 
      tatgactac gacgacgtc aagggagaa atatcaaat 
      cggcgagtg gttttcgat ttgagggac tacaatttg 
      actgcaagt cccgacggt atgaccatc gacgtggac 
      gataactta tgggtggct ctctttggc ggtggttcc 
      gtgatcaaa gtaaatcca aaaactgga caactacta 
      aatcggtat ccgatccca gccgaatgc gtcacttcc 
      gtcatgtgg ggaggaccc gagttggac attttattt 
      gtcacaact tcgaaactt cgactcagt gacgaagaa 
      attttgaaa caaccgggt gccggttgt gtttttgcg 
      ttaactaat ttgggcact aaaggtttt cccgttttc 
      gaggcagac ttaatcgac tcgatttaa
    mRNA sequence
    • >TC012276 RA
      accaaggtc aaacatctt cataaatga atctttcta 
      catacgcaa agtagttga acttgaact tcaagtgaa 
      gcaagatgt ggcacttta cttgcatca caatagtta 
      cgtttttcc aaatagctt caggattaa acaacttcg 
      acgttcccg ctttgtatc agattacgg agccgctaa 
      ctcatggag agtgtccgt catgggaca gcagaaaca 
      atcttctct actttgttg acattcaga aaggacaaa 
      tttacagct ataactaca caaacaagg aactaacat 
      ccataatac taaacgggt cagttgcac cagttgtcc 
      agtccaaat cagacccaa atcttctta ttgttggcc 
      tcgaccgct ccattgttg cagttaaat gggacagag 
      aaaatggaa attacacaa gtaaaacac ttgttacag 
      tagctgaag ataaaccag actcgacca tgaatgatg 
      gaaaggccg acaggagag gacggattt ggttcggaa 
      caatggatt acgatgctg atactaaaa atcatccag 
      ataaaggga gtctctaca aagtgacga aaaacagtg 
      tttcaacac ctcagccgg taattactc ccgttaatg 
      taagtaacg gaatggcct ggaataaag caaacaaca 
      agttttatt acatcgatt ccccaactc gccaaattt 
      tcgaatatg actacgacg acgtcaagg gagaaatat 
      caaatcggc gagtggttt tcgatttga gggactaca 
      atttgactg caagtcccg acggtatga ccatcgacg 
      tggacgata acttatggg tggctctct ttggcggtg 
      gttccgtga tcaaagtaa atccaaaaa ctggacaac 
      tactaaatc ggtatccga tcccagccg aatgcgtca 
      cttccgtca tgtggggag gacccgagt tggacattt 
      tatttgtca caacttcga aacttcgac tcagtgacg 
      aagaaattt tgaaacaac cgggtgccg gttgtgttt 
      ttgcgttaa ctaatttgg gcactaaag gttttcccg 
      ttttcgagg cagacttaa tcgactcga tttaagtat 
      tgttagagt tcgtctagt tttacactc aggcactta 
      gaaaagaga aaaaaaata tgaaataaa tattttcca 
      ctgcactga tttccaatc tcgctaggg aaaaaaact 
      ttttttcta ttaatttat ttgtccaat aaaaaagaa 
      aaaaaacat ttgtcaaaa aaatcacat tggctgttt 
      tttacatca atggatcga aaatgcgaa ataaaatta 
      ttctgcaaa a
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY