Status
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Gene information
General information
TC009428 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: 1379778..1382233
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
    TC009428
    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_10986

    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)

    adult lethality - Number of animals showing the phenotype: 3 (9 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
    • >TC009428 RA
      MPINQWKFL IVLKDSLSK LTNDKNLQN VFGKDAFQV 
      IQKIPLDLN NTITKYIGR ISNFNRLAR YDPETSGTL 
      PTIFASKLA VDIKTGPKW KNKGRVSKC SISSQTQHV 
      IQSLESAEN EDALLSRIE AFISHLQQF PEGRNSAIR 
      AGAVRILLR IRQNVPNGS IQGAVREAL AILGHSDPV 
      RANGIRILS MDGGGIRGL LILEMLKKL EELTGKHVH 
      ELFDLICGV STGAILAFI LGIHRKHVD EVATGYKDI 
      SLEVFKQSP LWGTSNLVW SQAYYDTSL WEKKLREHL 
      GSDSLIRTA RDRDCPKLC AISAVVNQS RLSAYVFRN 
      YSLPWRVKS QYFGGSHHE VWQAARASA AAPTYFEEF 
      KLGSFLHQD GGILVNNPT AVALHEAKL IWPETPVQC 
      VVSFGTGRT VPSPADFQK ECDDKTSST SWASKFYRI 
      LDSATDTEG VHIMLSDLL PPNVYYRFN PYLTEMISM 
      VEINPQKLE QLQRDAIMY LRRNEDKFQ EAAKVLMEE 
      KTYLQKCKD MVHFKRELY GF
    CDS sequence
    • >TC009428 RA
      atgcccata aatcagtgg aaattcctt atcgttttg 
      aaagactcg ctttcaaag ctaacaaac gacaagaat 
      ttgcaaaat gtgttcggc aaagacgca ttccaagtc 
      attcaaaaa attccacta gacctcaac aataccatt 
      actaaatac atcggccgc attagcaat tttaaccga 
      cttgcgaga tacgatccg gaaacttct ggtacctta 
      ccaacaatt tttgcatct aaactggct gttgatata 
      aaaacaggc cccaaatgg aaaaacaag ggccgggtg 
      tcaaagtgt agcatatct tcgcaaact cagcacgtc 
      atacaatcg ttagaatca gccgaaaac gaggacgct 
      ttacttagc agaattgag gcgtttatt tcacacctg 
      cagcaattt ccagaaggc cgaaacagt gcaattcga 
      gcaggtgcg gttcgaatt ttattgcga attcgccaa 
      aacgtccca aatggcagc attcagggt gcagtcaga 
      gaggcattg gcaattttg gggcactcg gaccccgtc 
      cgagccaac ggaattcgc attttgtca atggatggt 
      gggggaatc cgcgggttg ttgatttta gaaatgttg 
      aaaaaactg gaagaactg acagggaaa cacgttcac 
      gaattgttc gacttgatt tgtggtgtc agcactggc 
      gctattcta gcattcatt ttgggtata catcggaaa 
      catgtggac gaagtcgct acgggttat aaggacatc 
      agtctggag gtttttaag cagtcgccc ctttggggc 
      accagtaat ttggtgtgg agtcaagcg tactatgac 
      acgtctcta tgggagaaa aaactgcgt gagcacttg 
      ggcagtgat agtctaatt aggacggcg cgtgatcgt 
      gattgtccc aaattgtgt gcgatctca gcggttgtc 
      aatcagtct cgactatcg gcttacgtt tttcgtaat 
      tattctctt ccatggagg gtgaagtca cagtatttt 
      gggggaagt caccatgaa gtctggcaa gcagctaga 
      gcatcagct gcagcaccg acttacttt gaagagttc 
      aaattgggt agttttctg caccaggat gggggaatt 
      ctggtcaac aatccgact gcggtggcc ttgcatgag 
      gcaaaatta atttggcct gagactcca gtacaatgt 
      gtggtttcg tttgggacc gggagaacg gttccttca 
      cctgccgat tttcaaaaa gagtgtgac gataaaact 
      agcagtacc tcatgggct agtaaattt tatcgaatt 
      cttgatagt gcgactgat actgaaggt gtccatatc 
      atgttaagt gatttgttg ccaccaaat gtgtattat 
      cggtttaat ccatacttg actgaaatg atcagtatg 
      gtggaaatt aatcctcag aagttagag cagttgcaa 
      agagatgcg attatgtat ttgaggagg aacgaagat 
      aagtttcaa gaggctgca aaagtgcta atggaggag 
      aaaacatat ctgcaaaaa tgcaaagat atggttcat 
      ttcaagaga gaattgtac gggttttaa
    mRNA sequence
    • >TC009428 RA
      tgtcatttc tattctaac ctaaagatg taaattgta 
      aaatttgca aatgttttg aaatgtaaa aatgttcaa 
      aacaaagta gataattgt ccaaactgt gaaaaacta 
      attttgtga ttatttccg acatgtcta tgttaaatc 
      tctgttcca ataattaaa ttttaagaa taatgtata 
      tgtaaggta gggacgcaa aaaattaaa caattgtag 
      gatttttaa accacatca aaatgccca taaatcagt 
      ggaaattcc ttatcgttt tgaaagact cgctttcaa 
      agctaacaa acgacaaga atttgcaaa atgtgttcg 
      gcaaagacg cattccaag tcattcaaa aaattccac 
      tagacctca acaatacca ttactaaat acatcggcc 
      gcattagca attttaacc gacttgcga gatacgatc 
      cggaaactt ctggtacct taccaacaa tttttgcat 
      ctaaactgg ctgttgata taaaaacag gccccaaat 
      ggaaaaaca agggccggg tgtcaaagt gtagcatat 
      cttcgcaaa ctcagcacg tcatacaat cgttagaat 
      cagccgaaa acgaggacg ctttactta gcagaattg 
      aggcgttta tttcacacc tgcagcaat ttccagaag 
      gccgaaaca gtgcaattc gagcaggtg cggttcgaa 
      ttttattgc gaattcgcc aaaacgtcc caaatggca 
      gcattcagg gtgcagtca gagaggcat tggcaattt 
      tggggcact cggaccccg tccgagcca acggaattc 
      gcattttgt caatggatg gtgggggaa tccgcgggt 
      tgttgattt tagaaatgt tgaaaaaac tggaagaac 
      tgacaggga aacacgttc acgaattgt tcgacttga 
      tttgtggtg tcagcactg gcgctattc tagcattca 
      ttttgggta tacatcgga aacatgtgg acgaagtcg 
      ctacgggtt ataaggaca tcagtctgg aggttttta 
      agcagtcgc ccctttggg gcaccagta atttggtgt 
      ggagtcaag cgtactatg acacgtctc tatgggaga 
      aaaaactgc gtgagcact tgggcagtg atagtctaa 
      ttaggacgg cgcgtgatc gtgattgtc ccaaattgt 
      gtgcgatct cagcggttg tcaatcagt ctcgactat 
      cggcttacg tttttcgta attattctc ttccatgga 
      gggtgaagt cacagtatt ttgggggaa gtcaccatg 
      aagtctggc aagcagcta gagcatcag ctgcagcac 
      cgacttact ttgaagagt tcaaattgg gtagttttc 
      tgcaccagg atgggggaa ttctggtca acaatccga 
      ctgcggtgg ccttgcatg aggcaaaat taatttggc 
      ctgagactc cagtacaat gtgtggttt cgtttggga 
      ccgggagaa cggttcctt cacctgccg attttcaaa 
      aagagtgtg acgataaaa ctagcagta cctcatggg 
      ctagtaaat tttatcgaa ttcttgata gtgcgactg 
      atactgaag gtgtccata tcatgttaa gtgatttgt 
      tgccaccaa atgtgtatt atcggttta atccatact 
      tgactgaaa tgatcagta tggtggaaa ttaatcctc 
      agaagttag agcagttgc aaagagatg cgattatgt 
      atttgagga ggaacgaag ataagtttc aagaggctg 
      caaaagtgc taatggagg agaaaacat atctgcaaa 
      aatgcaaag atatggttc atttcaaga gagaattgt 
      acgggtttt aatacatga cattgactt gtaatttta 
      tttatttga gacttttga ccaaagtaa tttttttag 
      taatttatt caatcaacc aaggtgata tttaacgtt 
      tagatatta aagagatta tttccatat ttccaccga 
      ttctatatt tgtgttata actagtagt tgtattttg 
      tctgtaggt gtttcgttg ttaataaaa tattagcaa 
      taaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY