Status
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Gene information
General information
TC006181 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_007423.3: 4588200..4589874
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
    TC006181
    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_01008

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

    not developed/not fertilized - 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): 50% - 80%
    Comment: About 50% affected, 50% wt after counting
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    cuticle remnants without visible segmentation, differentiation or axis - Penetrance (percentage of animals/eggs on slide): less than 30%

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

    head not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen not present - 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): 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: 11.11% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 22.22% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (22 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006181 RA
      MSDLFTIKR NEKVGRFAV ASRALKPGD LIFTETPFA 
      YGPKSDSPP LCLGCFAPV DCTVLCSHC SWPVCGPEC 
      EAKPSHRDF ECGVFASAG VKFQAVEDP TNVCLQYEC 
      ITPLRVLLM KEKDPKRWQ EEIEAMESH NDVRKTKPI 
      WEFNQVNIV DYLKGPCKL DRFADELIH TVCGILEIN 
      AFEARASSG YLIRCLFPK LAILSHNCV SNVHHSVDC 
      DTFQVSVSA SVEVPESGE LFSSYTYSL WPTLVRREF 
      LKESKYFEC MCDRCKDKT ELGTHLGTL KCNKCDNGV 
      ILSTDPLSF TCEWKCTHC EFKTSAIAV RKVYEAVQT 
      EIDAVEMLS GPEGIEQRE AIFRKYRSV FHPKNAYMT 
      ILRTSLSQL YGRAEGYTV EDLPDLLLE RKVELCNQL 
      LEVLDVVEP GHSRIRGVT LYELHAPLL ILARNQYTS 
      GMIDKEQFR KKMEEAVEI LGKAVEILK IEVPNSNEG 
      QLGLVAQQA YEGLKQNFE LLIETA
    CDS sequence
    • >TC006181 RA
      atgagcgac ttgtttact atcaaaagg aacgaaaaa 
      gtgggccga tttgccgtg gcaagtcgg gcgcttaaa 
      cccggcgat ttaattttc accgaaact ccgtttgct 
      tatggacca aaatcggat tcacctccc ttgtgtctg 
      gggtgcttc gcacccgtc gattgtaca gttttgtgt 
      tcgcactgt tcctggccg gtgtgcggc cctgagtgc 
      gaggcgaag ccgagccat cgagacttt gaatgcggc 
      gttttcgcc tccgctgga gtgaaattc caggcggtc 
      gaagacccg acaaacgtg tgtcttcag tatgagtgc 
      atcacgccc ctgagggtg ctcctgatg aaggaaaaa 
      gacccgaaa cgctggcag gaggagatc gaggcgatg 
      gaaagccac aacgacgtc cgcaagacc aagcccatt 
      tgggagttc aatcaagtg aatattgtc gactacctc 
      aaagggccg tgtaagttg gaccgcttc gcggacgag 
      ttaattcac accgtttgt ggtattttg gaaatcaac 
      gcgttcgag gcaagggcc agttctggt tacctaatc 
      aggtgtttg ttcccgaag ttggcgatt ttgtcgcat 
      aattgcgtc tcaaacgtg caccattcc gtcgactgt 
      gacactttt caagtcagc gtttccgcc tcggtggaa 
      gttccggaa agtggcgaa ttgttcagt agttacact 
      tactcgctt tggccgact ctcgtccgg cgcgagttt 
      ttgaaagag agcaagtat ttcgaatgc atgtgcgac 
      aggtgcaag gacaagacc gagctaggg acacacttg 
      ggcaccctc aagtgcaac aaatgcgac aatggggtt 
      atcctaagc actgaccct ctcagcttc acctgcgag 
      tggaaatgc acccattgc gagttcaaa accagtgca 
      atcgccgtc cgaaaggtc tacgaagcg gtccagacc 
      gaaatagac gccgtggag atgctttcg gggcctgaa 
      gggatcgaa caacgcgag gctattttt aggaagtac 
      agatcggtg tttcatccg aagaatgcc tacatgacc 
      attctgcga acctccttg tcgcaactt tacggcaga 
      gctgagggt tacactgtt gaggatttg cccgatttg 
      ttgttggaa cgcaaagtg gagctttgt aatcaactt 
      ttggaggtt ttggatgtt gtcgagcca ggacattcg 
      aggattaga ggcgttacg ttgtacgag ttgcatgcg 
      ccgttgttg atccttgcc aggaatcag tacacttcg 
      gggatgatt gataaggaa cagttcagg aagaagatg 
      gaggaggct gtggagatt ttgggcaag gcggtggag 
      attttgaag attgaggtg cctaattcg aatgagggg 
      cagttgggg ttggtggcg caacaggcc tacgagggg 
      ttgaagcag aattttgag ttgttgata gagactgca 
      taa
    mRNA sequence
    • >TC006181 RA
      gccgagcga acaattcag tgcaaaaat gagcgactt 
      gtttactat caaaaggaa cgaaaaagt gggccgatt 
      tgccgtggc aagtcgggc gcttaaacc cggcgattt 
      aattttcac cgaaactcc gtttgctta tggaccaaa 
      atcggattc acctccctt gtgtctggg gtgcttcgc 
      acccgtcga ttgtacagt tttgtgttc gcactgttc 
      ctggccggt gtgcggccc tgagtgcga ggcgaagcc 
      gagccatcg agactttga atgcggcgt tttcgcctc 
      cgctggagt gaaattcca ggcggtcga agacccgac 
      aaacgtgtg tcttcagta tgagtgcat cacgcccct 
      gagggtgct cctgatgaa ggaaaaaga cccgaaacg 
      ctggcagga ggagatcga ggcgatgga aagccacaa 
      cgacgtccg caagaccaa gcccatttg ggagttcaa 
      tcaagtgaa tattgtcga ctacctcaa agggccgtg 
      taagttgga ccgcttcgc ggacgagtt aattcacac 
      cgtttgtgg tattttgga aatcaacgc gttcgaggc 
      aagggccag ttctggtta cctaatcag gtgtttgtt 
      cccgaagtt ggcgatttt gtcgcataa ttgcgtctc 
      aaacgtgca ccattccgt cgactgtga cacttttca 
      agtcagcgt ttccgcctc ggtggaagt tccggaaag 
      tggcgaatt gttcagtag ttacactta ctcgctttg 
      gccgactct cgtccggcg cgagttttt gaaagagag 
      caagtattt cgaatgcat gtgcgacag gtgcaagga 
      caagaccga gctagggac acacttggg caccctcaa 
      gtgcaacaa atgcgacaa tggggttat cctaagcac 
      tgaccctct cagcttcac ctgcgagtg gaaatgcac 
      ccattgcga gttcaaaac cagtgcaat cgccgtccg 
      aaaggtcta cgaagcggt ccagaccga aatagacgc 
      cgtggagat gctttcggg gcctgaagg gatcgaaca 
      acgcgaggc tatttttag gaagtacag atcggtgtt 
      tcatccgaa gaatgccta catgaccat tctgcgaac 
      ctccttgtc gcaacttta cggcagagc tgagggtta 
      cactgttga ggatttgcc cgatttgtt gttggaacg 
      caaagtgga gctttgtaa tcaactttt ggaggtttt 
      ggatgttgt cgagccagg acattcgag gattagagg 
      cgttacgtt gtacgagtt gcatgcgcc gttgttgat 
      ccttgccag gaatcagta cacttcggg gatgattga 
      taaggaaca gttcaggaa gaagatgga ggaggctgt 
      ggagatttt gggcaaggc ggtggagat tttgaagat 
      tgaggtgcc taattcgaa tgaggggca gttggggtt 
      ggtggcgca acaggccta cgaggggtt gaagcagaa 
      ttttgagtt gttgataga gactgcata atttattta 
      tttgttgtt gttgttttt aataaattt gtcgtgaag 
      tgtttgtgt tttattttt gttcgggtt ttttcctgt 
      tattggttg cagtttaat aatggttga gtgtcgttg 
      atttat
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