Status
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Gene information
General information
TC012342 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: 5088318..5115738
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
    TC012342
    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
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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_01967

    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: 60.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (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 remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): more than 80%
    posterior terminus complete not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    posterior terminus shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    Comment: Same phenotype present in hatched animals.
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - 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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

    Fertility
    fertility after larval injection decreased (no living offspring) -
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC012342 RA
      MPALRLFGR KWLAASDDL VFPGLFEIF VRTLWLILI 
      VVVHVKYYE DTWECTRGG DYVRTYIIG MMALLSLVI 
      VVLVALVNR SAKGSITDE EARKLVPPI LLLKLFLII 
      PETVLNVFG TMWAFCKDL VVCPYEGHF SRTVIEALV 
      VFNWALFGL AIFGLALVF DPLGSRRYH EVQETPSAG 
      ESLRHRKVT SLWQRRFRW AFCWVKSDE HGHEAFQQV 
      AALLSALFR STDLVPSDI LAGCVLLRV KQKRETREM 
      RRIQMLSDD EPKYSTDLN RIFAIAPRW MNLENARHF 
      LRLSMAAYG WPFVMYRYC GTGLFRLMR EVTCCSCFR 
      PKRTLVTDD NCCLCHLAG VKYMSKIRE DDILFASFR 
      NHVFELPFC VIADHKTSN IVIAIRGSI SLRDMFTDL 
      TATSEKFEA EGLPPDTMA HKGMVCGAN YVARRLKEV 
      NILDKALEK YPEYGLVLT GHSLGAGVA CLLALKIRH 
      KYPDLKVYA FSTPAGLLS RDAARLTEN FVFTVGVGD 
      DFVMRLGVD SIENLRTGI IQTLHASRL PKYRILLNG 
      FGYALFGVP SRDLETTWR DEMATAPGR SPLLNRSIP 
      TVAASTEAA LLSRDICVR RFSKTRLFT AGRILHIVS 
      RKKTKAERK AGTGGPSYE MRWATAEDF MELKVMPRM 
      LLDHLPENV YKTLDTVLR EQRDDVSEI I
    CDS sequence
    • >TC012342 RA
      atgcccgct cttcgcctg ttcggcagg aagtggtta 
      gccgcctcg gacgacctg gttttcccc ggattattc 
      gaaattttc gtcaggaca ctatggctg atattgatc 
      gtggtggtg cacgtgaaa tactacgaa gacacttgg 
      gagtgcaca cgtgggggc gattacgtc cggacttac 
      atcattggc atgatggcc ctccttagc ctcgtcata 
      gtcgtcctt gtggctcta gtcaaccgg agtgccaaa 
      ggatcaatc acggatgaa gaggctcgg aagctagtc 
      ccgccgatc ctactcctc aaactgttc cttatcatt 
      cctgaaaca gtcctcaat gttttcggg acgatgtgg 
      gcgttctgc aaggaccta gtcgtctgt ccttacgaa 
      ggacacttc tccaggact gtcattgaa gctttagtc 
      gttttcaat tgggctctc ttcgggctg gccatcttc 
      gggctggcc ctagtgttc gaccctttg ggctctcgc 
      cggtaccac gaagtccag gagaccccc agcgctggg 
      gagtccctc cgccaccgg aaagtcacc agtttgtgg 
      caacggcgg ttccgatgg gccttctgt tgggtgaaa 
      tcggacgaa cacggacac gaagccttc cagcaagtc 
      gccgctctc ctcagtgct ctcttccgg agcacagac 
      cttgtccct tctgacatc ctggccggc tgtgtgctc 
      ctcagagtg aagcaaaag cgggaaacg cgcgaaatg 
      aggcgaatt caaatgctg tcggacgat gagcccaaa 
      tatagcaca gacttgaat cgaattttc gcaatcgct 
      cctcgttgg atgaatctg gaaaatgca cggcatttc 
      ctgcgattg tcaatggcg gcctatggc tggcccttt 
      gtcatgtat aggtattgc gggactggg ctgttccgc 
      ttgatgcgg gaggttacg tgttgttcg tgtttccga 
      ccgaaaagg actttagta acggacgat aattgttgt 
      ttgtgtcac ttagcagga gtcaaatac atgtccaaa 
      atccgggag gatgacatc ctgtttgcc tcgttcaga 
      aaccacgtt ttcgagttg cccttctgc gtgatcgcc 
      gaccacaaa acctcgaac attgtgata gccatccgc 
      ggctcgatt tccctccgc gatatgttc acggacctg 
      acggcaacc tcggagaag ttcgaggcc gagggcctg 
      cccccggac accatggcc cacaagggg atggtgtgt 
      ggggccaac tacgtggcc aggaggctc aaagaagtg 
      aacattctg gacaaggcg ctcgagaag taccccgaa 
      tacggactg gttctgacg ggccacagt ctgggtgcc 
      ggcgttgct tgccttcta gctctcaaa atccgacat 
      aaatatcct gatctcaaa gtgtacgct ttttcaacg 
      ccagccggc ctcctgagc cgtgatgct gcaagactg 
      actgaaaac ttcgtcttc acggtgggc gtcggcgac 
      gacttcgtg atgcgcctt ggagtcgac agcatcgag 
      aacctgcgg acgggcata atccagacc ctccacgcc 
      agcaggctg ccgaagtac cgcattctg ctgaacggg 
      ttcgggtac gcgctcttc ggggtgccg tcgcgggac 
      ctggagacc acctggagg gacgagatg gccacggcg 
      ccggggcgg tccccactc ctgaaccgg tccattccc 
      acggtggcg gcctcgacg gaagctgcg cttttgtcg 
      cgggatatt tgcgtgcgg aggttttcc aagacgcgg 
      ctgttcacc gccggccgc attttgcac atagttagt 
      aggaaaaag accaaagct gaaaggaaa gctgggacc 
      gggggacca agttacgaa atgaggtgg gccacggct 
      gaggacttt atggagctt aaagttatg ccgaggatg 
      ttgctagac cacttgcca gaaaatgtt tataaaact 
      ctagacact gtccttagg gaacaaaga gatgatgtt 
      agtgagatc atttag
    mRNA sequence
    • >TC012342 RA
      ccttccagg taaaggggt atctctttt cccacacgg 
      tgcgcaagt aaaatcgcg caacgcgtg ctagcggcc 
      ggggaaatt ttcaattca tttagtgct ccaagagtc 
      gaacaggtg gaatgtcgg agtccggtt agctaagaa 
      cctctttcg aaatcgtta ctttgttat taaatggat 
      tttgtgttt gtgttcgac gatgtgacg cgatgatgt 
      gcttgaaag caggacgag ttctcaagg aataaatag 
      ttcagtcgt ggcaatttg cattttact aaaaggacc 
      tcgagcacg gtatgcccg ctcttcgcc tgttcggca 
      ggaagtggt tagccgcct cggacgacc tggttttcc 
      ccggattat tcgaaattt tcgtcagga cactatggc 
      tgatattga tcgtggtgg tgcacgtga aatactacg 
      aagacactt gggagtgca cacgtgggg gcgattacg 
      tccggactt acatcattg gcatgatgg ccctcctta 
      gcctcgtca tagtcgtcc ttgtggctc tagtcaacc 
      ggagtgcca aaggatcaa tcacggatg aagaggctc 
      ggaagctag tcccgccga tcctactcc tcaaactgt 
      tccttatca ttcctgaaa cagtcctca atgttttcg 
      ggacgatgt gggcgttct gcaaggacc tagtcgtct 
      gtccttacg aaggacact tctccagga ctgtcattg 
      aagctttag tcgttttca attgggctc tcttcgggc 
      tggccatct tcgggctgg ccctagtgt tcgaccctt 
      tgggctctc gccggtacc acgaagtcc aggagaccc 
      ccagcgctg gggagtccc tccgccacc ggaaagtca 
      ccagtttgt ggcaacggc ggttccgat gggccttct 
      gttgggtga aatcggacg aacacggac acgaagcct 
      tccagcaag tcgccgctc tcctcagtg ctctcttcc 
      ggagcacag accttgtcc cttctgaca tcctggccg 
      gctgtgtgc tcctcagag tgaagcaaa agcgggaaa 
      cgcgcgaaa tgaggcgaa ttcaaatgc tgtcggacg 
      atgagccca aatatagca cagacttga atcgaattt 
      tcgcaatcg ctcctcgtt ggatgaatc tggaaaatg 
      cacggcatt tcctgcgat tgtcaatgg cggcctatg 
      gctggccct ttgtcatgt ataggtatt gcgggactg 
      ggctgttcc gcttgatgc gggaggtta cgtgttgtt 
      cgtgtttcc gaccgaaaa ggactttag taacggacg 
      ataattgtt gtttgtgtc acttagcag gagtcaaat 
      acatgtcca aaatccggg aggatgaca tcctgtttg 
      cctcgttca gaaaccacg ttttcgagt tgcccttct 
      gcgtgatcg ccgaccaca aaacctcga acattgtga 
      tagccatcc gcggctcga tttccctcc gcgatatgt 
      tcacggacc tgacggcaa cctcggaga agttcgagg 
      ccgagggcc tgcccccgg acaccatgg cccacaagg 
      ggatggtgt gtggggcca actacgtgg ccaggaggc 
      tcaaagaag tgaacattc tggacaagg cgctcgaga 
      agtaccccg aatacggac tggttctga cgggccaca 
      gtctgggtg ccggcgttg cttgccttc tagctctca 
      aaatccgac ataaatatc ctgatctca aagtgtacg 
      ctttttcaa cgccagccg gcctcctga gccgtgatg 
      ctgcaagac tgactgaaa acttcgtct tcacggtgg 
      gcgtcggcg acgacttcg tgatgcgcc ttggagtcg 
      acagcatcg agaacctgc ggacgggca taatccaga 
      ccctccacg ccagcaggc tgccgaagt accgcattc 
      tgctgaacg ggttcgggt acgcgctct tcggggtgc 
      cgtcgcggg acctggaga ccacctgga gggacgaga 
      tggccacgg cgccggggc ggtccccac tcctgaacc 
      ggtccattc ccacggtgg cggcctcga cggaagctg 
      cgcttttgt cgcgggata tttgcgtgc ggaggtttt 
      ccaagacgc ggctgttca ccgccggcc gcattttgc 
      acatagtta gtaggaaaa agaccaaag ctgaaagga 
      aagctggga ccgggggac caagttacg aaatgaggt 
      gggccacgg ctgaggact ttatggagc ttaaagtta 
      tgccgagga tgttgctag accacttgc cagaaaatg 
      tttataaaa ctctagaca ctgtcctta gggaacaaa 
      gagatgatg ttagtgaga tcatttagg acgaaacct 
      cgatattgt tgaattttc ttctatacg tttcttaat 
      agcttctaa acattccca atgaacact tattttttc 
      gattttttg tatctgttg atcgattct gtatttata 
      tatttttta tattaagat tattgtaaa taaaaccta 
      tttctctat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY