Status
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Gene information
General information
TC009319 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_007422.5: 348476..350633
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
    TC009319
    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_08617

    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: 1 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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
    • >TC009319 RA
      MADKIKKFF AKKKADAKF KLAGPGHRL NESSTAIVG 
      PSKQKPAYV PQRSQPSDA TRQAADAAL ARLQNQSRN 
      PNFNTSLAA IQAQVRREL EAEKKSTEP VAPSAPVQT 
      NLETSPHLA VKGVYFRCP LISEEVLTK DEWKVKIKE 
      FLFEQLEEE RGLTACLII QSCNYNRNK VKECVDVLV 
      RYLDNIIAN PQEPKFHKI RCSNATFRD KVLPVLGAT 
      DFLLAAGFQ QQVLSHNGS DEEFWVFDE QNIESLQVL 
      ELLREALKC EDRVELELD RNIQVLSPA QAAQRIDLP 
      QEFYALSPE EVKREQQLR TEAMEKQMQ LRTKAMREK 
      EELREIRKY KFALIRIRF PDGLYLQGT FSVYEKFSE 
      VLDFVQDNL EHSGLPFVL TSPTGHKFE ESDNEISLA 
      QLKLVPATI LTFQWDASV ADEFARAGN TSYLKPEVM 
      MLMQQL
    CDS sequence
    • >TC009319 RA
      atggcggac aaaataaaa aaattcttc gcgaaaaaa 
      aaggccgat gccaagttt aagttggca gggccgggg 
      catcgtttg aatgagtcc tccactgca atagtgggg 
      cccagcaag caaaaacca gcctatgtg ccccaaagg 
      tcacagcct agcgatgcc acaaggcaa gcagctgat 
      gcggcttta gctaggctc caaaatcag agtagaaat 
      ccgaatttt aacacgtca ttagctgca attcaggcc 
      caagtcagg cgggaatta gaagctgag aagaaaagt 
      acagaaccg gtggcacca tcggctcct gttcaaact 
      aatctggag acttcgccc catcttgca gtcaaaggg 
      gtttatttt cgatgcccc ttaattagc gaagaagtg 
      ctcaccaaa gatgaatgg aaggtgaaa atcaaagaa 
      tttttgttt gaacaactg gaagaagag agaggttta 
      acagcctgc cttattatc cagtcttgc aattacaat 
      agaaataaa gtgaaagaa tgtgttgat gtattagtc 
      cgctatcta gacaatatc atcgccaat cctcaggaa 
      ccaaagttt cataaaatt cggtgttca aatgcaaca 
      ttccgagat aaagttttg ccggttttg ggagcgact 
      gattttttg ttagctgct gggttccaa cagcaagtt 
      ctgagtcac aacggcagt gatgaagaa ttttgggtg 
      tttgatgag caaaatatc gaaagtctt caagttcta 
      gagcttctt cgcgaagca ttaaaatgc gaagataga 
      gtggagtta gaattagat cgtaatatt caagtgttg 
      tcaccagcg caagctgcc caaaggata gacttgccc 
      caagaattt tacgcccta agtcctgaa gaagtcaag 
      agggagcaa caattaagg acagaagca atggaaaag 
      cagatgcaa ctaaggacc aaagcaatg cgtgagaaa 
      gaggaactt cgcgaaata cgcaaatat aaattcgct 
      ttgatacga attcgattc ccagatggt ctctatttg 
      caaggaact ttttcagtt tatgaaaaa ttctccgaa 
      gtgcttgat tttgttcaa gacaatttg gaacattcg 
      ggtttaccg tttgttctc acgtcgcca accggccac 
      aaattcgaa gaatcagat aatgagatt tctttagca 
      cagttgaag ttggttcca gcgacgatt ttgacgttt 
      caatgggat gcttcagtg gctgatgaa tttgcaagg 
      gcaggaaat acaagttat ctcaaaccc gaagtcatg 
      atgttgatg caacagctg tag
    mRNA sequence
    • >TC009319 RA
      ccaagctta caccaaatg tcattatta atcacttgt 
      attttcgct tgcaatgac agttttcgg tttgttcaa 
      gtgatgaac gaattattc tacaacatc cccacaaat 
      tcatcattt ctcgatgta atttacctt tactggaac 
      acgctaaac gtgtattta ttcgatgcg ataataata 
      ttgcgcaac aacaaaaac aaaaattta ttatcaatt 
      tttgacact ttaccggac tcgctttat tttgacgaa 
      tttcagtat tccctctta aaaacactt ttcttcatc 
      ctatcggtg aatttagtg ttgattttc ataacctgg 
      cgcgtgtac ggtaagcga atctgtgac cgttttatg 
      aaaccagcc acaaacaag gccatcgag gagctcaaa 
      gcaagcgtt tcgaagctt aaactacca aaggagcac 
      acgcctcga atataacac gatggcgga caaaataaa 
      aaaattctt cgcgaaaaa aaaggccga tgccaagtt 
      taagttggc agggccggg gcatcgttt gaatgagtc 
      ctccactgc aatagtggg gcccagcaa gcaaaaacc 
      agcctatgt gccccaaag gtcacagcc tagcgatgc 
      cacaaggca agcagctga tgcggcttt agctaggct 
      ccaaaatca gagtagaaa tccgaattt taacacgtc 
      attagctgc aattcaggc ccaagtcag gcgggaatt 
      agaagctga gaagaaaag tacagaacc ggtggcacc 
      atcggctcc tgttcaaac taatctgga gacttcgcc 
      ccatcttgc agtcaaagg ggtttattt tcgatgccc 
      cttaattag cgaagaagt gctcaccaa agatgaatg 
      gaaggtgaa aatcaaaga atttttgtt tgaacaact 
      ggaagaaga gagaggttt aacagcctg ccttattat 
      ccagtcttg caattacaa tagaaataa agtgaaaga 
      atgtgttga tgtattagt ccgctatct agacaatat 
      catcgccaa tcctcagga accaaagtt tcataaaat 
      tcggtgttc aaatgcaac attccgaga taaagtttt 
      gccggtttt gggagcgac tgatttttt gttagctgc 
      tgggttcca acagcaagt tctgagtca caacggcag 
      tgatgaaga attttgggt gtttgatga gcaaaatat 
      cgaaagtct tcaagttct agagcttct tcgcgaagc 
      attaaaatg cgaagatag agtggagtt agaattaga 
      tcgtaatat tcaagtgtt gtcaccagc gcaagctgc 
      ccaaaggat agacttgcc ccaagaatt ttacgccct 
      aagtcctga agaagtcaa gagggagca acaattaag 
      gacagaagc aatggaaaa gcagatgca actaaggac 
      caaagcaat gcgtgagaa agaggaact tcgcgaaat 
      acgcaaata taaattcgc tttgatacg aattcgatt 
      cccagatgg tctctattt gcaaggaac tttttcagt 
      ttatgaaaa attctccga agtgcttga ttttgttca 
      agacaattt ggaacattc gggtttacc gtttgttct 
      cacgtcgcc aaccggcca caaattcga agaatcaga 
      taatgagat ttctttagc acagttgaa gttggttcc 
      agcgacgat tttgacgtt tcaatggga tgcttcagt 
      ggctgatga atttgcaag ggcaggaaa tacaagtta 
      tctcaaacc cgaagtcat gatgttgat gcaacagct 
      gtagcttct atctcactt tacatttat tactttatc 
      acctatgct tggattaaa tttatgctg ttgatattt 
      attattact gcgttttca gatgtatga tgtatattt 
      tacattaaa ttatttatt atgaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY