Status
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Gene information
General information
TC002350 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.

NW_015452276.1: 30057..33143
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
    TC002350
    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
    {{ goGene }}
    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
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    Email
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    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_03358

    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: 0.0% (includes death as pupa, adult)

    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
    • >TC002350 RA
      MSINLDIRL KRADKVYRE DENITGVIA ISSTSDLKH 
      DGITLTVEG CVNLQLSSK NVGIIDAFY NSVKPIQLI 
      GVTCEVSGS GRLPAGATE IPFEVPLKP KPNRVLYET 
      YHGVYINIS YAIRCDVRR SFLSKDLQK SQQFLVQYW 
      PARNPGPPP HIKDNRKPV QFKLSPTTL ASGGAGAPD 
      FLLKGQLNS ICCSISRPL TGHLVLDRC AAPVRSIEL 
      QLVRVETCG CAEGYAREA TEIQNIQIG DGDIPTNVD 
      IPIYMVFPR LFTCPTLIT PNFKIEFEI NLVIVFHDD 
      HLVTNNFPL ILVRE
    CDS sequence
    • >TC002350 RA
      atgtcgata aacctcgat ataagactg aaacgtgcc 
      gataaggtc taccgcgaa gacgagaac atcacgggg 
      gtcatagca ataagcagc acctcagac ctgaagcac 
      gacggcata acgctcaca gtcgagggc tgtgtcaac 
      ctacaactc agctcaaag aacgtgggc attattgac 
      gccttctac aattcagtc aagcccata caactgatc 
      ggagtcacg tgcgaggtg agtggttcg gggcgtctt 
      cccgcggga gcgacggaa atcccgttt gaagtccct 
      ctaaagccg aaacctaac cgcgttttg tacgaaacc 
      taccatggg gtttatatc aatatcagt tatgcaata 
      cgctgcgat gttagacgt tcgttttta tcgaaagat 
      ttgcaaaaa agccaacaa tttctagtg caatattgg 
      ccggcgcgg aacccaggg cccccgcca catatcaaa 
      gacaacagg aagccggtg cagttcaag ttgagcccc 
      acgacttta gcatcaggg ggcgcaggc gcccccgat 
      tttttactg aaagggcaa ctcaattca atttgctgc 
      agtataagc aggcctctg actgggcat ttggtgcta 
      gataggtgt gcagcccct gtcaggtca attgagttg 
      cagttggtc agagtggag acttgtggc tgtgcagag 
      gggtatgcc agggaggcc acggagatt caaaatata 
      caaatcgga gatggggac attcctaca aatgttgac 
      attcccatc tacatggtg ttcccaaga ctgttcacg 
      tgcccaact ttgataacc cccaatttt aaaattgaa 
      ttcgaaata aatttagtc atcgtgttc cacgacgac 
      catttggtc acaaacaac ttccccctg attctagtg 
      agagaataa
    mRNA sequence
    • >TC002350 RA
      caatgtcac atttgacac ttacttttt aggttatgt 
      ttttgtaca catttcagc tttaaactt gtttttttc 
      gccaaacga gccaaaaca tgtcgataa acctcgata 
      taagactga aacgtgccg ataaggtct accgcgaag 
      acgagaaca tcacggggg tcatagcaa taagcagca 
      cctcagacc tgaagcacg acggcataa cgctcacag 
      tcgagggct gtgtcaacc tacaactca gctcaaaga 
      acgtgggca ttattgacg ccttctaca attcagtca 
      agcccatac aactgatcg gagtcacgt gcgaggtga 
      gtggttcgg ggcgtcttc ccgcgggag cgacggaaa 
      tcccgtttg aagtccctc taaagccga aacctaacc 
      gcgttttgt acgaaacct accatgggg tttatatca 
      atatcagtt atgcaatac gctgcgatg ttagacgtt 
      cgtttttat cgaaagatt tgcaaaaaa gccaacaat 
      ttctagtgc aatattggc cggcgcgga acccagggc 
      ccccgccac atatcaaag acaacagga agccggtgc 
      agttcaagt tgagcccca cgactttag catcagggg 
      gcgcaggcg cccccgatt ttttactga aagggcaac 
      tcaattcaa tttgctgca gtataagca ggcctctga 
      ctgggcatt tggtgctag ataggtgtg cagcccctg 
      tcaggtcaa ttgagttgc agttggtca gagtggaga 
      cttgtggct gtgcagagg ggtatgcca gggaggcca 
      cggagattc aaaatatac aaatcggag atggggaca 
      ttcctacaa atgttgaca ttcccatct acatggtgt 
      tcccaagac tgttcacgt gcccaactt tgataaccc 
      ccaatttta aaattgaat tcgaaataa atttagtca 
      tcgtgttcc acgacgacc atttggtca caaacaact 
      tccccctga ttctagtga gagaataag atataaaaa 
      ttattttat tcaattaat gcttacata aggatagtg 
      tacaaaagt aaatataca taatagaat taagactca 
      gcgaccgcc agcgccaaa ttcgaaacg ataggatcg 
      agctgtttt tcaatcgcc aaaatatgc cctgtatta 
      caagtatca ctagcaata aatgttaca ataagtgga 
      agtttgttc atttgtata acttgatac tgagagtag 
      acacagatc aaagtgttt gtttttcct aaacctagt 
      ttacttcct tggtccaca gcaagtcca aacgttgaa 
      atgaagttg ggcctcatt gcgtgctcg ggggcctta 
      tccgaatta actttgagc aagtggaca ccgtcacgg 
      tcggtgatg acgacgccg tacaggccg gacaccttc 
      gacaggagc tcctgaagg ttgtttttc acttcttcg 
      accattctt tcggcgatt ttttaattt atttttaat 
      aaaacataa acagctgat tttgacagt tgacacaaa 
      cgtcaaacc aataatcat gaaaaatgt ag
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY