Status
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Gene information
General information
TC012542 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_007424.3: 11136304..11145002
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
    TC012542
    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_02925

    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 not developed/not fertilized - 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 partially degenerated - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (41 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC012542 RA
      MNRKRDITL QIVHEPEGT DPFVTSGYA 
      HRETMSASG DDGGGLSYE KFLECIKQI 
      VQISNDIHD GWQLHSKEG VDTGGYITK 
      KASQELEKS SEGAKLIAL FEYHIAYNI 
      NYGVPVLCF LAWKQDGSS LQIEEYCEY 
      NKKFSDYDI LSTLTQLDH PVLCRPFLT 
      LHPCRTRDV LDTFQNKSK NPVISWLSV 
      ISPFLDLRL EEEYIKAC
    CDS sequence
    • >TC012542 RA
      atgaaccga aagagagat attacattg caaattgtg 
      cacgaaccg gaaggaacc gacccattt gttactagt 
      ggatacgcc caccgagag acgatgtca gcatcaggc 
      gacgatggc ggaggtttg agttacgaa aaatttctc 
      gaatgcatt aaacaaatt gtccaaata tcgaatgac 
      attcacgac gggtggcaa cttcactcc aaggagggt 
      gtggatacc ggcgggtac attacgaaa aaagccagt 
      caggaactg gaaaagtcg tcggagggg gcgaaattg 
      atcgcgctt ttcgaatat cacatagct tacaacatt 
      aattacggt gtcccagtt ttgtgtttc ttagcatgg 
      aaacaagat ggtagttcg cttcaaata gaggaatat 
      tgcgaatac aacaagaag ttttcagat tacgacatt 
      ctaagcaca ttaactcaa ttggatcat ccagtttta 
      tgcagaccg tttcttaca ctgcatcct tgcagaacc 
      cgagatgtt ttagatacg tttcagaat aagagtaaa 
      aacccggta atatcatgg ttgagtgtg atcagcccg 
      tttcttgat ctcaggctg gaggaagaa tacattaag 
      gcttgttga
    mRNA sequence
    • >TC012542 RA
      cggcgagac ggaagccgg cagtgcttc gccgtattt 
      taccacgcc cgtaggtag cagacctta gcaacggtt 
      gccatctca accaaatgt cttttcgca gaacgggtg 
      ggggaaagt gtctagaaa ttatcaggc atacgtata 
      ctataccct ttcccaaat cgtaaatta ttcgcagta 
      taatacaat tagaaaaag attcgaatc ggcggcgag 
      acgctgaat caattttaa gtcgcttcc aagaaacgc 
      acaaaaaga aattaagga taattgtcg ataaataaa 
      cgcttgagt ttgaagaag gcatcaatc aaagtgagt 
      atgccacct ctatcataa aatttatta tcgctggaa 
      cgtgacgat ttctttcac ttgggttat ttaccgtta 
      cagggtgaa tcaaatgca ttcttatct cattcacat 
      tcttgaaaa actttccta tcggagtat cgagtatta 
      aatgataga gcggttccg agaagtttg ttcattttc 
      tcattctcc taaatgcat atacagatt ccaggacgt 
      tccgagaag tgaccaagc ttcgtctga ttattacat 
      ttttctaat ataactgca tccaaacat ttttccaag 
      atttgttat gttggggtt ttccactaa ttatattat 
      tgttccgca aatgaacta acaaatcca agtaatgta 
      gtgttacag ggttatagt cagttgttt ggtatcgca 
      aaaagtaat cctctcccc agaatagtt tttggtgtt 
      tacgcactg gctcctttg tcagtcgtg cttcaaaaa 
      tgttttcaa ctctaatgg ttgtactga agttttaag 
      aggtgattg tggagggca aaagatgcg aaaattact 
      cgacctgtc ttccgaatg ttaatagtt ggtgaggcg 
      cagagggtt gtcggatga aacgcgtag ccttaactt 
      caccaacaa aaattgtaa atgattatc tcagagaaa 
      ataaggtcc tacgaatgt ggatttagg aaaatgtgt 
      tggaagatg gagaacaac caaagttta ccaaagaaa 
      acttcaata gaacgacaa aagcatgaa gaagaccac 
      ccaagctaa atgcgaaac aaaatattg ccacaatct 
      tgtgtattg agaaatttg gcaaaaata ggaatgaaa 
      gtactatac tgaaaagtg aaaagatgt ttgttgacg 
      taaaacaac tgttcaaga gaactatca ttattgatt 
      agttgttgt gtcaagttt tgtttagta atttgataa 
      atcgtgtaa ataaatttg aatgaaccg aaagagaga 
      tattacatt gcaaattgt gcacgaacc ggaaggaac 
      cgacccatt tgttactag tggatacgc ccaccgaga 
      gacgatgtc agcatcagg cgacgatgg cggaggttt 
      gagttacga aaaatttct cgaatgcat taaacaaat 
      tgtccaaat atcgaatga cattcacga cgggtggca 
      acttcactc caaggaggg tgtggatac cggcgggta 
      cattacgaa aaaagccag tcaggaact ggaaaagtc 
      gtcggaggg ggcgaaatt gatcgcgct tttcgaata 
      tcacatagc ttacaacat taattacgg tgtcccagt 
      tttgtgttt cttagcatg gaaacaaga tggtagttc 
      gcttcaaat agaggaata ttgcgaata caacaagaa 
      gttttcaga ttacgacat tctaagcac attaactca 
      attggatca tccagtttt atgcagacc gtttcttac 
      actgcatcc ttgcagaac ccgagatgt tttagatac 
      gtttcagaa taagagtaa aaacccggt aatatcatg 
      gttgagtgt gatcagccc gtttcttga tctcaggct 
      ggaggaaga atacattaa ggcttgttg aacaattat 
      tccaataaa aatgccaga attgcatta tttcaattt 
      ttcaaaccg tccattatt cacttgatg ggcaccgta 
      ttgtatgaa aattacaat gcatgtact taggcacgt 
      gttgattga ggaataaaa taaaaggtc aaaacgtta 
      tttattaca actatatgg ctcgagctt gcaaaacaa 
      ttaattgtt gcacgagta aaaatgttt ccttcgccc 
      tgaaaaatg cgagctgat taaagtgtc ttctcgctg 
      ataaggaag gaaagtggg cagcttacg aagaattca 
      gaattgatg taaaagtta ttccgggaa tgccgatgg 
      ttcattgga tgatgcacc gttacactt gaaattcct 
      aaataagtg tgcaaaatt tcgacgtgt cagaaattg 
      ggtcaagtt tagattcgc caggtaaca agtcctttg 
      cataatggt gacaacagc agttagcat atttatgac 
      gaattctta aactgacat ttccaatgg taaatatta 
      ggcagcacg ggaggtctt tggcagttt gtggggttt 
      tggcttaaa tgtttgccc atccccgaa acaacttct 
      ggctttttt cgttattct tgttttgtc tattatcaa 
      aaactagtt agagtgaca tttgacgaa tgcttttaa 
      attaaattc agtatgttg acgaacatg tggaactgg 
      tcgagttca ctctacgtg ccaacaata gtacaacga 
      aggatcagt tgctgtgta atcataatg actcgcaca 
      aaagaccac cgttttcaa agacagttg ccagagcgg 
      ccctagacg agagtttaa ttattttcg gaatttcca 
      attcgcaaa aacgttgcc aaacctcgg cccaattcc 
      ggacccgca aaaactcgc cgaaaatgt aaatgtcgc 
      aataaattg attagaaag ttgttagtg attcattac 
      attagcaac aatggggct tcctgtata aataaaaat 
      aaattactc gggcagttt ggaaagacg ttaactttt 
      ccgaacgag ttcattata atcgaaacc ttggattaa 
      ccctaatcc cgaccgcta attaattaa taaataggc 
      gataaccat caaaactcc ggtaaacgc gccgccgag 
      aacaactga tagagcaat taactctcg attgagcat 
      cgagaaaaa cttccatct attgttgca attccggga 
      aacgtaatg ctttgcaag cgtctgata tgattttta 
      atatagtca aggatttct gaaaaaaca caactctct 
      tcgtacaga atatctaat aggcatact tatttccgc 
      ttggtgact ttacctaat ttacgacag acttccggc 
      tttcaaatt gaaataatt aatttgtgg ttattcaag 
      tgtaaatat ttgttgaat taatttttc ggttagagc 
      tttacgcgt tttgtacgg tttttgggg aaaatgggc 
      acgagagcg gccttttaa tcgttttaa aatattaaa 
      tatcgtgga acgaaccga agcaacaac ttgcaaatc 
      ggttaaatt tttcacgac gagacgtgt ttttgtaag 
      actcaggta gtaaaccat ctgtccctt ttgccggcg 
      gagttgccg tttttattt tccgataga cgaaaccac 
      aagatgcac caacgtatt gcttaatta attaactgg 
      atcaaactt ttgtgtgtc attacgtag tcagtaggc 
      aatatttgg gagaaaaaa cttcattat agataatta 
      cgatgtgta tttccggtc gaaacgaca gacccgtca 
      ttatttacg aatttcaaa gtattggat gagttttta 
      aactctgaa aatagggtg ggaacggct ctaatggtt 
      aaatggttg tagccttag acattgtcg taaaatccg 
      ggttaagct ttttcagct gatatgaca ataaagtgt 
      tttagacta a
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY