Status
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Gene information
General information
TC009240 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: 2758569..2766150
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
    TC009240
    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 *
    {{ blurReferenceResult }}
    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
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    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_01513

    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 embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%
    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    larval musculature fluorescence decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larval musculature thinner - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 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): less than 30%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    head appendages shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    head appendages partially not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen shape irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    posterior terminus not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    abdomen segment partially split - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    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
    • >TC009240 RA
      MLGAEQAGL NAGRHALAW VLGQTDIWY LLYRCANYV 
      SKGHGQSPS SVSILDNLF TLDEDHLDY QDEDDLNNQ 
      FLIQGRATN VQNGGRLVV LFVILLLLL LSRIKKKTM 
      AMSNLYSKI APKPVKRAQ DNLSVSQTN AWMNAETLN 
      NGALSLSPP HIISQRENL QVMQPASAP GSPPSSPCV 
      SPTGPPGTL DPNWQASKP TVRERNAAM FNNDLMADV 
      RFIVGSPGA TQDIPAHKY VLATGSSVF YAMFYGGLA 
      ECKEEIEVP DVEPSAFLT LLKYLYCDE IQLEADTVL 
      ATLYVAKKY IVPHLARAC VNYLETSLT AKNACLLLS 
      QSRLFEEPE LMQRCWEVI DAQAEMALK SEGFVDIDM 
      STLESVLAR ETLNCKEMN LLEAALNWA GAECARQDV 
      EPTPQNKRA VLGNALYLI RIPTMTLDE FANGAAQMG 
      ILTQEETIN IFFHFTANN KPSLQYPIK PRAGLKSQV 
      CHRFQSCAY RSNQWRYRG RCDSIQFSV DRRIFVVGF 
      GLYGSSNGA ADYSVKIEL KRLGRVLAE NNTQFFSDG 
      SSNTFHVYF DNPIQIEPE SFYTASAIL DGGELSYFG 
      QEGMSEVTV GQVTFQFQC SSESTNGTG VQGGQIPEL 
      IFYGPAYEE H
    CDS sequence
    • >TC009240 RA
      atgctgggt gccgagcaa gctgggctg aatgctggg 
      cgtcacgct ttggcctgg gtactaggt cagaccgat 
      atttggtac ctattgtac cggtgcgct aattacgtt 
      agcaagggg cacggtcag tcacccagc agtgtctcc 
      atcctggac aaccttttc accctggac gaggaccat 
      ttggactac caggacgaa gacgatctc aacaaccag 
      ttcctcatc caaggcaga gcaacgaac gtacaaaat 
      ggcggccgt ttagtcgtg ctttttgtt atcttgtta 
      ttgttgttg ttatctcga attaaaaaa aaaacaatg 
      gctatgtcg aatctatat tcgaaaata gccccgaaa 
      ccggtcaaa cgggcccag gacaactta tccgtttcg 
      caaacgaat gcgtggatg aacgcagaa accctcaac 
      aatggggcc ctcagtctc tccccgccg cacatcatc 
      tcccaacga gaaaacttg caggtgatg caacctgca 
      agtgccccc ggctcgccc ccttctagt ccttgtgtc 
      tcgcccacg gggccccca ggcaccctc gaccccaac 
      tggcaggcc agcaagccc acggttcgg gaacgcaac 
      gccgctatg ttcaacaat gacctaatg gcggacgtg 
      cggttcatt gttggcagc cctggcgcc actcaggac 
      atccccgca cacaaatac gtcctggcg accggaagt 
      tccgtcttc tatgccatg ttttacggc ggactggcc 
      gaatgcaag gaggaaatc gaagtacct gacgtcgaa 
      ccgtctgcg tttctcacc ttactcaaa tatttatac 
      tgtgatgag atccagctg gaagcggac acggttctt 
      gcaacttta tacgtagcg aaaaaatat atcgttccg 
      catttggcg cgtgcctgt gtgaactat ctcgaaact 
      agtctgact gcgaaaaac gcctgtctc ttgttgagt 
      caatcgcgt cttttcgaa gaaccggaa ctgatgcaa 
      cgatgttgg gaggtgatt gacgctcag gccgagatg 
      gcgttaaaa tcggagggc ttcgtcgac attgacatg 
      tcaaccctc gagtcggtc ctggcccga gagacttta 
      aattgcaaa gagatgaat ttactagag gcagctttg 
      aactgggcg ggggccgaa tgcgcccgt caagacgtc 
      gaacccacc ccacaaaac aaacgagcg gtgttgggc 
      aacgccctc tacctgata cgaatcccg acgatgaca 
      cttgacgaa ttcgcaaac ggtgctgca caaatgggc 
      attctgacg caagaagag actataaat attttcttt 
      cattttaca gcgaataac aaacccagt ctgcagtac 
      cccatcaag ccgcgcgcc ggactgaaa tcgcaggtg 
      tgccaccgg ttccaatcg tgtgcctac aggtcgaac 
      cagtggcgg tatagagga cgctgcgac agcatccag 
      ttttcggtc gaccgccgc attttcgtg gtcggtttc 
      gggctttac ggctcgtcg aacggcgct gccgattat 
      agcgttaaa atcgaactg aagcgctta ggtcgcgtt 
      ttggccgaa aacaacact cagtttttc tcagatggt 
      tctagcaat acgtttcat gtgtacttc gacaatccg 
      atacaaatc gaacccgag tcgttttac acggcttcg 
      gccatccta gacggcggc gaattgagt tatttcgga 
      caggagggt atgagtgag gtgactgtt ggccaagtg 
      acgtttcaa tttcaatgt tcctcggaa agtacaaac 
      ggaacagga gtacaagga ggtcaaatt ccggaactt 
      attttttac ggaccggcg tatgaagaa cactag
    mRNA sequence
    • >TC009240 RA
      ggagtaccg tcagttcat gtgattgtt tcgaccaag 
      tgagagtgc tcgagtggt gcttcgctt ggtgatagt 
      ttgtagtct gcagcgatt tcccaaaaa attgcgaat 
      ttctgcaga agtgcaaag acacgtcgt ggctttttc 
      gaaaaagtg agtgcccca aaaagcggc cttgcacgc 
      gtgcgtgtg caaatttgc tcggttaat tggccaaac 
      aaaatatta gtgtaccac taagcgatt tttctgtcg 
      caattgcgc ctcaaaatt gcacacaca cttccaaat 
      gacaatatt tgcgtgatc agccttcga gcgcttcag 
      tacttaaaa cacgccttc caacccatg ttttaagcg 
      atctttttg ctatgctgg gtgccgagc aagctgggc 
      tgaatgctg ggcgtcacg ctttggcct gggtactag 
      gtcagaccg atatttggt acctattgt accggtgcg 
      ctaattacg ttagcaagg ggcacggtc agtcaccca 
      gcagtgtct ccatcctgg acaaccttt tcaccctgg 
      acgaggacc atttggact accaggacg aagacgatc 
      tcaacaacc agttcctca tccaaggca gagcaacga 
      acgtacaaa atggcggcc gtttagtcg tgctttttg 
      ttatcttgt tattgttgt tgttatctc gaattaaaa 
      aaaaaacaa tggctatgt cgaatctat attcgaaaa 
      tagccccga aaccggtca aacgggccc aggacaact 
      tatccgttt cgcaaacga atgcgtgga tgaacgcag 
      aaaccctca acaatgggg ccctcagtc tctccccgc 
      cgcacatca tctcccaac gagaaaact tgcaggtga 
      tgcaacctg caagtgccc ccggctcgc ccccttcta 
      gtccttgtg tctcgccca cggggcccc caggcaccc 
      tcgacccca actggcagg ccagcaagc ccacggttc 
      gggaacgca acgccgcta tgttcaaca atgacctaa 
      tggcggacg tgcggttca ttgttggca gccctggcg 
      ccactcagg acatccccg cacacaaat acgtcctgg 
      cgaccggaa gttccgtct tctatgcca tgttttacg 
      gcggactgg ccgaatgca aggaggaaa tcgaagtac 
      ctgacgtcg aaccgtctg cgtttctca ccttactca 
      aatatttat actgtgatg agatccagc tggaagcgg 
      acacggttc ttgcaactt tatacgtag cgaaaaaat 
      atatcgttc cgcatttgg cgcgtgcct gtgtgaact 
      atctcgaaa ctagtctga ctgcgaaaa acgcctgtc 
      tcttgttga gtcaatcgc gtcttttcg aagaaccgg 
      aactgatgc aacgatgtt gggaggtga ttgacgctc 
      aggccgaga tggcgttaa aatcggagg gcttcgtcg 
      acattgaca tgtcaaccc tcgagtcgg tcctggccc 
      gagagactt taaattgca aagagatga atttactag 
      aggcagctt tgaactggg cgggggccg aatgcgccc 
      gtcaagacg tcgaaccca ccccacaaa acaaacgag 
      cggtgttgg gcaacgccc tctacctga tacgaatcc 
      cgacgatga cacttgacg aattcgcaa acggtgctg 
      cacaaatgg gcattctga cgcaagaag agactataa 
      atattttct ttcatttta cagcgaata acaaaccca 
      gtctgcagt accccatca agccgcgcg ccggactga 
      aatcgcagg tgtgccacc ggttccaat cgtgtgcct 
      acaggtcga accagtggc ggtatagag gacgctgcg 
      acagcatcc agttttcgg tcgaccgcc gcattttcg 
      tggtcggtt tcgggcttt acggctcgt cgaacggcg 
      ctgccgatt atagcgtta aaatcgaac tgaagcgct 
      taggtcgcg ttttggccg aaaacaaca ctcagtttt 
      tctcagatg gttctagca atacgtttc atgtgtact 
      tcgacaatc cgatacaaa tcgaacccg agtcgtttt 
      acacggctt cggccatcc tagacggcg gcgaattga 
      gttatttcg gacaggagg gtatgagtg aggtgactg 
      ttggccaag tgacgtttc aatttcaat gttcctcgg 
      aaagtacaa acggaacag gagtacaag gaggtcaaa 
      ttccggaac ttatttttt acggaccgg cgtatgaag 
      aacactagg acgtgtagg gtttttgtt cgggcgtta 
      tgcgaattg tttactttc tgtttgttt aaagtgctg 
      tgaattaag ggacttttt atttatgat ttaatgtta 
      aggtgatgt ttttttact tgatttttt gtttgtaat 
      aacgaaact ggatatctc caaaagatg ttgtgttca 
      cacatatga aatacaaat actgtaaat agtttgttt 
      aaaaaatat ataatacta aaatgatat attcccgta 
      agaaagctt aatcattag atatttttc gaaatgtct 
      tacagattt ttgcctctc aagtgataa ccatgtact 
      gttttgagg tttaggttt gagtcagac gagtccatg 
      tattaacca aacagggtt cgatgaata cagacgtgt 
      aaaagtagc ttagctttt tttatttac tgttttgtt 
      attacgaga agatttcca gagtaacta ctagcatag 
      caatattta tacggcaaa catttgctt acattgcca 
      tgatattcg ttactactt atgtgatac aacaaataa 
      tttgataaa atatatatc ttggtagtt t
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY