Status
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Gene information
General information
TC012046 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: 7095847..7100257
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
    TC012046
    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 *
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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
    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_08948

    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: 2 (3 dpi)
    Days post injection


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 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
    • >TC012046 RA
      MKPLKPTET IYKSQGTWT DALTVCKNA GIGYSTNQI 
      YREDGNPQE DHPYEDCSC HYEFNNGTC WYAVFDGHE 
      GQKAPHFSS QLTAEIYFS QLTEKKTDD EVREILRQA 
      FISVETGYM QSIGDLLAD RLRLQDDLP EGSNSYEAY 
      QKAPHVVES IKRINCELS SGAAAAVAL IHNNKLYVA 
      NVGNCRVLL CKTDANSVL KVVQLSVDH DLKNEDELL 
      RLAQIGINR EYLRNCTYL GNQENTRCL GNYLVKGGY 
      KEFEDLSKA TQEPVTAEP DIHGGIVLD DSCRFLLLM 
      TAELYKCIE EATGTDQVN KYIAQCVVE QFREQATLT 
      GVAQAVVDK AVRLHHDWY MSNSNSDKS CSAQREDIT 
      LVLRNFNYP MPRAIKTPT TPSSNSFPT QNTLIETAP 
      SPDSTIRSS DTTSTSTNR TIKIEEIGS DNKVKPYVD 
      FSVFYRNAE AAKANGTLP EWWDA
    CDS sequence
    • >TC012046 RA
      atgaagcct ctaaagcca accgagaca atttacaag 
      agccaaggg acatggacc gacgcattg acagtgtgc 
      aaaaacgcc ggaattgga tattccacc aaccagatc 
      taccgcgag gacggcaac ccccaggag gaccacccg 
      tatgaagac tgcagctgc cactacgag ttcaacaac 
      ggcacctgc tggtacgcg gtcttcgac gggcacgag 
      ggccagaaa gccccgcat ttctcgtcg cagctgacc 
      gccgaaatc tacttctct caactgacc gagaagaag 
      actgacgat gaagtgagg gagatcctg agacaggcg 
      ttcatttcg gtcgaaacg gggtatatg cagtcgatt 
      ggcgacctg ctggctgac agattaagg ctgcaggat 
      gacttaccc gaaggctcg aactcgtac gaggcctat 
      cagaaggcg ccccatgtc gttgagagt attaaacgg 
      atcaattgt gagctgtcg tcaggggcc gccgctgcc 
      gtcgctttg attcacaac aataagtta tatgtggct 
      aatgtcgga aattgtcgc gtattgtta tgcaaaact 
      gatgcaaat tcggtgttg aaagtcgtc cagttgagt 
      gtcgaccac gatttgaag aacgaggac gagttgctg 
      aggctggcg cagattggg atcaatcgg gagtatttg 
      aggaattgc acatatttg ggcaatcag gaaaacacc 
      cgttgtttg ggcaattac ctggtaaaa gggggctac 
      aaggagttc gaagacttg agtaaagcc acacaagag 
      ccggttacc gccgaaccc gacatccac ggcggcatt 
      gtcctcgac gactcttgc agattcctc ctcctaatg 
      accgcagaa ctgtacaaa tgcatagag gaggcaaca 
      gggaccgat caagtcaat aaatacatc gcccaatgt 
      gtcgttgaa caattccgc gaacaagca accctgact 
      ggggtggcc caggccgtc gtcgacaag gcagtgagg 
      ctccaccac gactggtac atgtcgaac tccaactcg 
      gacaaatcc tgcagtgcc cagcgagag gacataacc 
      ctggttttg cgcaacttc aactacccc atgcctcgc 
      gccatcaaa acgcccaca acgccctct tcaaactcg 
      ttccccact cagaacacg ctcatcgaa acagccccc 
      tcgcctgac agtacaatc cgcagcagc gacactaca 
      agtacctcc acaaaccgc acgataaaa atcgaagaa 
      atcggctcc gataacaaa gtcaagccc tatgtcgac 
      ttctcggtg ttttaccgc aatgctgaa gcggccaaa 
      gccaacgga acgctcccc gagtggtgg gacgcctaa
    mRNA sequence
    • >TC012046 RA
      cctgacttg gacacgatt tatggcatc gtaaacgaa 
      gagaattta ttgggtttg ctaaaattt aacgaaatt 
      tagtaaaca taacggtat ttttactgc aatttctag 
      tgaaacgtc acaaatgtc acaataaca caatcacaa 
      caaaaaaag tgggtcggg tttggggaa aacaggctg 
      gacacacga aattcaatg tcactggtg atataattt 
      gctggaact agaccaagt tatggtaat ccccttatt 
      aatattaca tcgttaaaa gtgaaaaaa tacagttac 
      actctcgaa ttgtatgtt tggagtaaa tacgaagtg 
      ttatttaat ttatgccgt ccggtcacg tggtatcta 
      caccagaag tgttgccaa cagtggtta ttgccattt 
      tttaggtta tgtatttgt caaaaatat atgaagcct 
      ctaaagcca accgagaca atttacaag agccaaggg 
      acatggacc gacgcattg acagtgtgc aaaaacgcc 
      ggaattgga tattccacc aaccagatc taccgcgag 
      gacggcaac ccccaggag gaccacccg tatgaagac 
      tgcagctgc cactacgag ttcaacaac ggcacctgc 
      tggtacgcg gtcttcgac gggcacgag ggccagaaa 
      gccccgcat ttctcgtcg cagctgacc gccgaaatc 
      tacttctct caactgacc gagaagaag actgacgat 
      gaagtgagg gagatcctg agacaggcg ttcatttcg 
      gtcgaaacg gggtatatg cagtcgatt ggcgacctg 
      ctggctgac agattaagg ctgcaggat gacttaccc 
      gaaggctcg aactcgtac gaggcctat cagaaggcg 
      ccccatgtc gttgagagt attaaacgg atcaattgt 
      gagctgtcg tcaggggcc gccgctgcc gtcgctttg 
      attcacaac aataagtta tatgtggct aatgtcgga 
      aattgtcgc gtattgtta tgcaaaact gatgcaaat 
      tcggtgttg aaagtcgtc cagttgagt gtcgaccac 
      gatttgaag aacgaggac gagttgctg aggctggcg 
      cagattggg atcaatcgg gagtatttg aggaattgc 
      acatatttg ggcaatcag gaaaacacc cgttgtttg 
      ggcaattac ctggtaaaa gggggctac aaggagttc 
      gaagacttg agtaaagcc acacaagag ccggttacc 
      gccgaaccc gacatccac ggcggcatt gtcctcgac 
      gactcttgc agattcctc ctcctaatg accgcagaa 
      ctgtacaaa tgcatagag gaggcaaca gggaccgat 
      caagtcaat aaatacatc gcccaatgt gtcgttgaa 
      caattccgc gaacaagca accctgact ggggtggcc 
      caggccgtc gtcgacaag gcagtgagg ctccaccac 
      gactggtac atgtcgaac tccaactcg gacaaatcc 
      tgcagtgcc cagcgagag gacataacc ctggttttg 
      cgcaacttc aactacccc atgcctcgc gccatcaaa 
      acgcccaca acgccctct tcaaactcg ttccccact 
      cagaacacg ctcatcgaa acagccccc tcgcctgac 
      agtacaatc cgcagcagc gacactaca agtacctcc 
      acaaaccgc acgataaaa atcgaagaa atcggctcc 
      gataacaaa gtcaagccc tatgtcgac ttctcggtg 
      ttttaccgc aatgctgaa gcggccaaa gccaacgga 
      acgctcccc gagtggtgg gacgcctaa caagcatca 
      gtgttgtga tttttatta acttttaac attgtacaa 
      attgctgat tttaataaa aatttatta tggtt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY