Status
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Gene information
General information
TC005517 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_007423.3: 11848836..11851663
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
    TC005517
    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_00874

    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: 20.0% (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


    adult lethality immediately after eclosion - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    Fertility
    previtellogenic egg chamber not present - Number of animals showing the phenotype: 4

    vitellogenic egg chamber number decreased - Number of animals showing the phenotype: 4
    vitellogenic egg chamber potentially degenerated - Number of animals showing the phenotype: 4
    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: 70.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    pupal molt not fulfilled (died as L7 or prepupa) - Number of animals showing the phenotype: 7 (11 dpi)
    Days post injection



    larva lethality late (L7) - Number of animals showing the phenotype: 3 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005517 RA
      MSNENKCEN MDNQQGENA TNLSNSTSV CEANTGVAI 
      KNIESDALD RLLVYDSDS SSSSEMMKL NLNWRAQEG 
      SEDSSSSSS SSSEDEEDS ETSGDDDDD DDSQPIETT 
      TQNKGAIKK SQPKVSDEL GIEHLPPVP DLSSLQINV 
      ENESFVHMG NVFGIVDKL VTIAALPNT PAYDLDTLL 
      FLDNGKRPL GFVFDVLGQ VTSPIYAIR FNSLEDIKN 
      LQIEIGTKV YSAPTSKHT QYVFLQQLL KMKGSDASW 
      MDDTEVPPE FADFSDDEN ECYQRYGNK KLAPHVKRT 
      HSSDNYKKF ETTMNRKNI LNTKFNKYM DSYKQARLN 
      KAKSKRPQA PNIHTAVPM FDPSVPPPN MAHYHQPIA 
      QYVGVENNN MGPSLGFAP NFFMNNFVS NSASYLNHP 
      GPSHQ
    CDS sequence
    • >TC005517 RA
      atgtcaaac gaaaataag tgcgaaaac atggacaac 
      caacaggga gaaaacgca acgaattta tcaaattcc 
      actagtgtg tgtgaagct aatacgggt gttgcaata 
      aaaaacatc gaatctgat gcactggac cgtcttttg 
      gtgtatgac agcgactcg agctcttcc tccgagatg 
      atgaagctt aacctgaat tggagggct caggagggg 
      tccgaggac tcgtccagt tcctcgtct tcgtcttcg 
      gaggatgag gaggacagt gaaacgagt ggggacgat 
      gatgatgac gatgactca cagcccatt gaaacaacg 
      acacaaaat aagggggct attaagaaa agccaacct 
      aaagtcagt gatgaacta gggattgaa catttgccc 
      ccggttccg gacttgtca tcgcttcaa attaacgtg 
      gaaaatgag agttttgtg catatggga aatgtgttc 
      gggattgtg gataagtta gtaactatc gcggccctt 
      ccaaacact ccagcgtac gacttggat acgctcctc 
      ttcctagac aacggcaag cgacctcta ggtttcgtt 
      ttcgacgtt ttaggccaa gtcacttcc cctatctat 
      gccattcgt ttcaattca cttgaagac ataaaaaat 
      ttacaaatt gagattgga acaaaagtc tattccgca 
      cctacaagc aagcacaca caatacgtt ttccttcaa 
      cagctgctc aaaatgaaa ggtagtgac gcttcctgg 
      atggacgac acggaagtc ccccccgag ttcgccgat 
      ttttccgac gacgaaaac gagtgttac cagcgatac 
      ggtaataaa aaactagct cctcacgtg aaacgcacc 
      cacagtagc gacaattac aaaaaattc gagacgaca 
      atgaaccga aagaacatc ctcaatacg aaatttaac 
      aaatacatg gattcgtac aagcaggcg cgcttgaac 
      aaagctaaa tcgaaacgg ccacaagca cccaacatc 
      cacacggct gtgcccatg ttcgaccca tcggtgccg 
      ccacccaac atggcacac taccaccaa cccatcgcc 
      cagtacgtt ggcgtcgaa aacaacaac atgggccct 
      agtctcgga ttcgctcca aattttttc atgaataat 
      ttcgttagc aactccgca agctatctg aaccatccg 
      gggccctcg caccaatag
    mRNA sequence
    • >TC005517 RA
      ttttgtaaa agtagtgat tgtgtaagg ggtggcgtg 
      cactatcgt tgcaagcgc ccctttagc tggccttga 
      aggccggcc aatggcgag gcgcaaatt gggtcacgt 
      gccgaaagt ttccactgc aaatggcgg ctagcaaac 
      atgagaaca tccacatgg cagtaaaat cgcaaaatc 
      cgcttaaat gttcgcagt attccttac cataacagt 
      gattaattg ttagtttac gttaaattc cgatcatcc 
      cttatcacc tcacagcat gtcaaacga aaataagtg 
      cgaaaacat ggacaacca acagggaga aaacgcaac 
      gaatttatc aaattccac tagtgtgtg tgaagctaa 
      tacgggtgt tgcaataaa aaacatcga atctgatgc 
      actggaccg tcttttggt gtatgacag cgactcgag 
      ctcttcctc cgagatgat gaagcttaa cctgaattg 
      gagggctca ggaggggtc cgaggactc gtccagttc 
      ctcgtcttc gtcttcgga ggatgagga ggacagtga 
      aacgagtgg ggacgatga tgatgacga tgactcaca 
      gcccattga aacaacgac acaaaataa gggggctat 
      taagaaaag ccaacctaa agtcagtga tgaactagg 
      gattgaaca tttgccccc ggttccgga cttgtcatc 
      gcttcaaat taacgtgga aaatgagag ttttgtgca 
      tatgggaaa tgtgttcgg gattgtgga taagttagt 
      aactatcgc ggcccttcc aaacactcc agcgtacga 
      cttggatac gctcctctt cctagacaa cggcaagcg 
      acctctagg tttcgtttt cgacgtttt aggccaagt 
      cacttcccc tatctatgc cattcgttt caattcact 
      tgaagacat aaaaaattt acaaattga gattggaac 
      aaaagtcta ttccgcacc tacaagcaa gcacacaca 
      atacgtttt ccttcaaca gctgctcaa aatgaaagg 
      tagtgacgc ttcctggat ggacgacac ggaagtccc 
      ccccgagtt cgccgattt ttccgacga cgaaaacga 
      gtgttacca gcgatacgg taataaaaa actagctcc 
      tcacgtgaa acgcaccca cagtagcga caattacaa 
      aaaattcga gacgacaat gaaccgaaa gaacatcct 
      caatacgaa atttaacaa atacatgga ttcgtacaa 
      gcaggcgcg cttgaacaa agctaaatc gaaacggcc 
      acaagcacc caacatcca cacggctgt gcccatgtt 
      cgacccatc ggtgccgcc acccaacat ggcacacta 
      ccaccaacc catcgccca gtacgttgg cgtcgaaaa 
      caacaacat gggccctag tctcggatt cgctccaaa 
      ttttttcat gaataattt cgttagcaa ctccgcaag 
      ctatctgaa ccatccggg gccctcgca ccaatagga 
      atttcgact tttctaagt ttcatgcca tgtaaaaga 
      ctgttgttg ttttaccat ataattgag aatgttcag 
      ttgatttgt gtttcgcaa cttgtttct attatttct 
      aataaacgt ttaaaagtt tg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY