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Gene information
General information
TC003827 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: 22247397..22249426
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
    TC003827
    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_07043

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 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
    • >TC003827 RA
      MHLKLVHNV DDKMYLFYC NFCQYKTNS EANLTKHTF 
      TNHTTDQKV ALFYCHLCQ YKTETERNL KRHISTNHA 
      SPETIVTHE CSQCAFKTR HQVDLKRHI IRRHTAPET 
      IQWYQCDQC DYRAKFTFA LKKHIRTKH DIVTTLNTT 
      NVQKHACQH CPFTTRYPG DLKRHILRR HTAVEAIEW 
      YKCEQCDYK AKLKFSLKQ HVHMQHTFA NQSEFFPCH 
      MCPYKSVNE ANLKKHIVK KHSSQKTFE CSHCFFTTK 
      LQCYLKRHQ KIQHAASEE VKWFKCDQC DYKGKFQMY 
      LQKHIKLNH
    CDS sequence
    • >TC003827 RA
      atgcatcta aaattggtc cacaacgtg gacgataaa 
      atgtactta ttctactgc aatttctgc cagtataaa 
      accaacagt gaggcaaac ttgacaaaa catactttc 
      accaaccac acaaccgac caaaaagtg gctctgttt 
      tactgccac ctttgccag tacaagaca gagacagaa 
      aggaatctc aaaagacac atttcaacc aatcacgca 
      tctcctgaa actatagta acgcacgaa tgcagccaa 
      tgtgcgttc aaaacgcgg catcaagtc gacttgaaa 
      cgccacatc attagacgt cacactgcc cctgaaacc 
      atccagtgg taccaatgt gaccaatgc gactatcgg 
      gcaaaattt accttcgct ttgaaaaaa catataagg 
      acaaaacac gacattgtt accactctc aacactaca 
      aatgtgcaa aagcacgct tgccaacac tgccctttc 
      actacgcga tatccaggg gatttaaaa aggcacatc 
      ctgcgacgt cacacggct gtggaagcg atcgaatgg 
      tacaagtgt gagcagtgc gattataaa gccaagttg 
      aaattctcg ttaaaacag cacgtgcat atgcaacat 
      acgtttgct aatcagagt gaatttttc ccttgtcac 
      atgtgtccg tacaaaagt gtaaatgaa gcgaatttg 
      aaaaaacat attgttaag aaacattca tcacagaaa 
      acgttcgaa tgttcgcat tgctttttc acgacgaag 
      cttcagtgt tatttgaag aggcatcaa aagatccaa 
      catgctgct tctgaggag gttaagtgg tttaaatgc 
      gatcagtgt gactataag gggaagttt caaatgtat 
      ttacaaaag cacatcaag ttgaatcac tga
    mRNA sequence
    • >TC003827 RA
      tgaagtttc aaaaaaata ggtcattgt catttgtca 
      ctcaaaact gtggtttgt gcaattttc gtcattaat 
      tctcaagta ctccaaaca tctgtaagc cagttgaac 
      cgtaataac atgaaagtt gaatcctac aattttggt 
      aaccaagaa tttagctgc ggaacaaat tttcttgaa 
      ccttacaag tgcaattac tgtgatttt cacacagat 
      ctctggatt gatttcaac agtcataag aaaacacat 
      tgcttccaa aaactacca atagatcca acaatttat 
      acgtgcaat aagtgtggt tttagaact ttttcgatt 
      ttacatcta ctgagacat aatttagat agacacaag 
      ttgaaccat gaacataaa acatacaat agttggtac 
      gtaaaaagc cactctctc aggcacaga agtgaagaa 
      ctgtatcaa tgcagttta tgtgagtac cagtgcaat 
      aaaaaatgg aatttacaa cggcatgtt ttaaaacac 
      tcagcttat aataaaagc tctgaaaaa attacaaac 
      tgtgagcat gtttcacgg caattctat tgcaacgtc 
      tgcgaatat aaaacacac aatagttgg aacttaaaa 
      agacactct ctcagacac aggagcgaa aaactatat 
      cagtgtagt ttatgtgaa taccaatgc aataaaaag 
      tggaacttg cgacgacat gctttaaaa cactcggcg 
      tatgataaa agttccgga gaaattcga aactatgag 
      caaaaattc gaatgcgac tactgtgat tacaaggct 
      caacttaaa atagatttg acaatgcat ctaaaattg 
      gtccacaac gtggacgat aaaatgtac ttattctac 
      tgcaatttc tgccagtat aaaaccaac agtgaggca 
      aacttgaca aaacatact ttcaccaac cacacaacc 
      gaccaaaaa gtggctctg ttttactgc cacctttgc 
      cagtacaag acagagaca gaaaggaat ctcaaaaga 
      cacatttca accaatcac gcatctcct gaaactata 
      gtaacgcac gaatgcagc caatgtgcg ttcaaaacg 
      cggcatcaa gtcgacttg aaacgccac atcattaga 
      cgtcacact gcccctgaa accatccag tggtaccaa 
      tgtgaccaa tgcgactat cgggcaaaa tttaccttc 
      gctttgaaa aaacatata aggacaaaa cacgacatt 
      gttaccact ctcaacact acaaatgtg caaaagcac 
      gcttgccaa cactgccct ttcactacg cgatatcca 
      ggggattta aaaaggcac atcctgcga cgtcacacg 
      gctgtggaa gcgatcgaa tggtacaag tgtgagcag 
      tgcgattat aaagccaag ttgaaattc tcgttaaaa 
      cagcacgtg catatgcaa catacgttt gctaatcag 
      agtgaattt ttcccttgt cacatgtgt ccgtacaaa 
      agtgtaaat gaagcgaat ttgaaaaaa catattgtt 
      aagaaacat tcatcacag aaaacgttc gaatgttcg 
      cattgcttt ttcacgacg aagcttcag tgttatttg 
      aagaggcat caaaagatc caacatgct gcttctgag 
      gaggttaag tggtttaaa tgcgatcag tgtgactat 
      aaggggaag tttcaaatg tatttacaa aagcacatc 
      aagttgaat cactgacgt ttgtcttgt attagtttt 
      tgttataaa gttttacgt taaaaatat acaaattga 
      gcaagaatg ggtgtttta attggattg agagcattt 
      taatattcg agcgtttgc aacactgta agttacagt 
      ttgatgcgt caattggtc agctatacc taccacgta 
      aaaataaag ttcattatt gccaactta aacagtcat 
      tcttgatca ttttgtagg tgaaataaa taatttata 
      acagg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY