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Gene information
General information
TC002956 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_007418.3: 5831793..5833094
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
    TC002956
    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_00480

    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: 3 (3 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 remarks: bad quality of preparation,
    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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (41 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC002956 RA
      MEQFLEFIR KAKQALSNI GTFKNVHLV LGNESCDLD 
      STISALSLA YLIHSRNTN DLVIPVMNV EARYFPLRT 
      ETNYLLKKY AIDPKNLVY KDQINYSNI LKTTKVTTS 
      LVDHHVLSN HDKVLEPTV VEIFDHRTI NTEEICRGD 
      HVEKTVIKI VGSCCTLIT NEIIESKLP ILFHDLSHL 
      LYATIIYDT IGLDKESGK TFEDDLQVA HYLENILKP 
      TETRKELFN VLWKIHNDT SSLTSQDLL YRDLKVVKG 
      VPIPGLPML VEQYLSRED ADSAIAAFA SEFKTSSVV 
      LIGIDASGD VKRDIAVFS TDSTFKKTL ISILNDSKH 
      DLRLTETSV KSKNIVCFG QGNIKLTRK FILPLVNDA 
      AVQCQK
    CDS sequence
    • >TC002956 RA
      atggaacag tttttagaa tttataagg aaggccaaa 
      caagctctc agcaatatt ggaactttc aaaaacgtt 
      catttggtg cttgggaat gagtcttgt gacttggac 
      tccacaatt tctgcatta tcccttgct tatttaata 
      cattcacgt aatactaac gatttagta atccccgtg 
      atgaacgtt gaagctaga tattttccc ttgaggact 
      gagacaaat tacttgttg aaaaaatac gctattgat 
      cccaaaaat ctcgtttac aaggatcag atcaattat 
      tcaaatatc ttaaaaacc accaaagta acaactagc 
      ttagtggac caccatgtg ttatcaaac catgataaa 
      gtcctagaa ccaacagtt gtagaaatc tttgaccac 
      agaaccatc aacaccgaa gaaatttgt cggggggat 
      cacgtggaa aagaccgtt attaaaata gtcggttct 
      tgttgcact ttgatcaca aatgaaatt attgagtca 
      aagttgcca attttattt catgacttg agtcacctt 
      ttatatgct acaattatt tacgacact atcggactt 
      gataaggaa agtgggaaa acgttcgag gatgatctt 
      caagttgca cattacttg gaaaacatc cttaaacca 
      accgaaacc aggaaagaa ttgttcaac gtgttgtgg 
      aaaatccac aacgatacg tctagtctg actagccaa 
      gatttactc taccgagac ctaaaagtg gttaagggt 
      gtcccaatc ccgggttta ccaatgttg gttgagcaa 
      tatttaagt cgtgaggat gcagatagc gctattgca 
      gcgttcgcg agtgaattc aaaacatcc agtgttgtt 
      ttaattggg attgacgct agtggcgac gttaaaaga 
      gacattgcg gttttttct accgattcc acgtttaaa 
      aaaacgtta atctcgatt ttgaatgac agtaaacat 
      gacttacga ctcaccgag acttctgta aaaagtaag 
      aatattgtg tgtttcgga cagggcaat attaaattg 
      acacgtaaa tttattctg cctctggta aacgatgca 
      gctgtacaa tgccaaaaa tag
    mRNA sequence
    • >TC002956 RA
      tataagtgc tcaataaaa tggaacagt ttttagaat 
      ttataagga aggccaaac aagctctca gcaatattg 
      gaactttca aaaacgttc atttggtgc ttgggaatg 
      agtcttgtg acttggact ccacaattt ctgcattat 
      cccttgctt atttaatac attcacgta atactaacg 
      atttagtaa tccccgtga tgaacgttg aagctagat 
      attttccct tgaggactg agacaaatt acttgttga 
      aaaaatacg ctattgatc ccaaaaatc tcgtttaca 
      aggatcaga tcaattatt caaatatct taaaaacca 
      ccaaagtaa caactagct tagtggacc accatgtgt 
      tatcaaacc atgataaag tcctagaac caacagttg 
      tagaaatct ttgaccaca gaaccatca acaccgaag 
      aaatttgtc ggggggatc acgtggaaa agaccgtta 
      ttaaaatag tcggttctt gttgcactt tgatcacaa 
      atgaaatta ttgagtcaa agttgccaa ttttatttc 
      atgacttga gtcaccttt tatatgcta caattattt 
      acgacacta tcggacttg ataaggaaa gtgggaaaa 
      cgttcgagg atgatcttc aagttgcac attacttgg 
      aaaacatcc ttaaaccaa ccgaaacca ggaaagaat 
      tgttcaacg tgttgtgga aaatccaca acgatacgt 
      ctagtctga ctagccaag atttactct accgagacc 
      taaaagtgg ttaagggtg tcccaatcc cgggtttac 
      caatgttgg ttgagcaat atttaagtc gtgaggatg 
      cagatagcg ctattgcag cgttcgcga gtgaattca 
      aaacatcca gtgttgttt taattggga ttgacgcta 
      gtggcgacg ttaaaagag acattgcgg ttttttcta 
      ccgattcca cgtttaaaa aaacgttaa tctcgattt 
      tgaatgaca gtaaacatg acttacgac tcaccgaga 
      cttctgtaa aaagtaaga atattgtgt gtttcggac 
      agggcaata ttaaattga cacgtaaat ttattctgc 
      ctctggtaa acgatgcag ctgtacaat gccaaaaat 
      aggaaaatg cattgttag tctttaata aacgaaatt 
      ataaata
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY