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Gene information
General information
TC000539 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_007417.3: 10024690..10026388
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
    TC000539
    iBeetle screen iB_00124

    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)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection


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


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 85.71% (includes death as larva, prepupa, pupa, adult)

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (19 dpi)
    Days post injection



    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC000539 RA
      MSNKQQETP GGSMDNVRV KISEKYKPP PRIGLAMSY 
      AQRLTLNKQ IQDTIPHYE FVLEKTVIE KMKEWRTAR 
      SVMFQQLNE RLEKAREEK KRQDEQTDY QLEEEIEVS 
      SPSQCYQQN QSMLMPVKT YSTVLTPVS SGSQTDKSP 
      FNISDFEAD TSSPFDNME LKSINDLEE LAQVLKGEE 
      SKPNYSTPA YPMVGPSNY TYNIPSSTS YVPTSHYSN 
      HNGYYYAPE TIQTYPYSY TNQGENKYS CSPQDYKSI 
      PDIMKTLQN ELDNTHIDN TRSKSTDVF PKRSDDLTD 
      EFTSLPKNM QDLSKSISS MGFPLSRVA RVCKMLGND 
      QKKVVEHLL AMSELLDLG FPESRVSKA LLECDNDRD 
      KALDVLIS
    CDS sequence
    • >TC000539 RA
      atgtcgaac aaacagcaa gaaaccccc ggcggttcc 
      atggacaac gtccgagtg aagatatcc gaaaagtac 
      aagccccct ccacggata ggcctggca atgtcctac 
      gcacaaaga ctcacttta aacaagcaa atccaagat 
      acgatcccg cattacgag tttgtttta gaaaagact 
      gtaatagag aaaatgaag gagtggagg accgcgcga 
      tctgtgatg ttccagcag ttaaacgag agactagag 
      aaagcgaga gaggagaaa aagcggcaa gacgagcag 
      accgattat cagctagaa gaagagatc gaagtttca 
      agccctagt caatgttac caacaaaac caatcaatg 
      ttaatgcct gtcaaaacc tactccact gtcctgacc 
      cccgtctcg tccgggagc cagacggac aaaagtccg 
      ttcaatatc tccgacttc gaggcggac acttcgagc 
      cccttcgac aacatggag ctaaagtca atcaatgat 
      ttggaagag ctagcgcaa gttttaaaa ggagaagaa 
      tctaaaccc aactactca acgcccgct tatcccatg 
      gtgggcccc agcaactac acctacaac attcccagc 
      tccaccagt tacgtcccc acgtcgcat tattcgaac 
      cacaacggc tactactac gcccccgaa acgatacaa 
      acctaccct tatagttac acaaaccaa ggcgaaaat 
      aagtacagt tgttcgccc caagactac aaaagcata 
      cccgatatt atgaagacg ttgcaaaac gaactcgat 
      aatacgcat atagacaat acacggagc aaaagtact 
      gacgttttt cctaaacgg agcgacgac ttaaccgac 
      gaatttact tctctacca aagaatatg caagatttg 
      tccaaatcg atcagctcg atgggattc cccctgtcc 
      agggtcgcc cgcgtttgc aaaatgctg ggcaacgac 
      caaaaaaag gtggtggag catttactg gcaatgtcc 
      gagttgcta gacttagga ttccccgaa agtagagta 
      tcgaaagcc ctccttgaa tgcgataac gacagagat 
      aaagctttg gacgttctc atttcgtag
    mRNA sequence
    • >TC000539 RA
      ccaacggcc caaatcccc taaagccaa tatgtcatc 
      agatgacaa agataaaaa atattcgta aagaattaa 
      ttttaatgt tattaatta ctcgaagtt gattttctg 
      caagcagga cgaatcaaa accgcgcct ttcctttac 
      ttaacgatg taacttctg tgttgttag ctcctgaaa 
      ttcggaaaa gtgtcccag ttgtgtaag gttaagttg 
      tgacaatgt cgaacaaac agcaagaaa cccccggcg 
      gttccatgg acaacgtcc gagtgaaga tatccgaaa 
      agtacaagc cccctccac ggataggcc tggcaatgt 
      cctacgcac aaagactca ctttaaaca agcaaatcc 
      aagatacga tcccgcatt acgagtttg ttttagaaa 
      agactgtaa tagagaaaa tgaaggagt ggaggaccg 
      cgcgatctg tgatgttcc agcagttaa acgagagac 
      tagagaaag cgagagagg agaaaaagc ggcaagacg 
      agcagaccg attatcagc tagaagaag agatcgaag 
      tttcaagcc ctagtcaat gttaccaac aaaaccaat 
      caatgttaa tgcctgtca aaacctact ccactgtcc 
      tgacccccg tctcgtccg ggagccaga cggacaaaa 
      gtccgttca atatctccg acttcgagg cggacactt 
      cgagcccct tcgacaaca tggagctaa agtcaatca 
      atgatttgg aagagctag cgcaagttt taaaaggag 
      aagaatcta aacccaact actcaacgc ccgcttatc 
      ccatggtgg gccccagca actacacct acaacattc 
      ccagctcca ccagttacg tccccacgt cgcattatt 
      cgaaccaca acggctact actacgccc ccgaaacga 
      tacaaacct acccttata gttacacaa accaaggcg 
      aaaataagt acagttgtt cgccccaag actacaaaa 
      gcatacccg atattatga agacgttgc aaaacgaac 
      tcgataata cgcatatag acaatacac ggagcaaaa 
      gtactgacg tttttccta aacggagcg acgacttaa 
      ccgacgaat ttacttctc taccaaaga atatgcaag 
      atttgtcca aatcgatca gctcgatgg gattccccc 
      tgtccaggg tcgcccgcg tttgcaaaa tgctgggca 
      acgaccaaa aaaaggtgg tggagcatt tactggcaa 
      tgtccgagt tgctagact taggattcc ccgaaagta 
      gagtatcga aagccctcc ttgaatgcg ataacgaca 
      gagataaag ctttggacg ttctcattt cgtagcacc 
      ttatcacgt ggctgtgcc gatgttaat ttcataatc 
      atgttattt ataattatt tatttgtaa atatatcaa 
      tcgtgagct aagacgagg attctgcaa taaaactta 
      tattgtgta acgtttagt agttgtttc tttcagtat 
      tttgaatac tcgcgacga aagtgcatt tttccttgg 
      tgattgtac cagttttct atttttaag cttttataa 
      acatctgta cgattatct gaaaatact caagatgat 
      aaataaata catacatac tta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY