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Gene information
General information
TC000541 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: 10007207..10009128
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
    TC000541
    iBeetle screen iB_03036

    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, no fluorescence - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    larval musculature irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    larva partially dorsalnot closed - Penetrance (percentage of animals/eggs on slide): less than 30%

    head capsule decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    head capsule irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    head bristle irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    Comment: The irregular head bristle pattern is potentially due to the decreased head capsule (secondary defect).
    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
    • >TC000541 RA
      MSRDESFVA VKNTAESMV PSIGSDDED SFVVLETSN 
      SISESLSCS PPRDEILPP IRTNKVHEM ENLIRMKIS 
      QITVDPLPE LPAAVDAIV PSVASIAIS PDSSYEEIQ 
      KQVEELIKE NEKLKNIIA QNNMSMKAQ YTRFLAYRD 
      EVTNVMKSY KDKFNDAKM CIDKYKEEN AKLVSDVEV 
      YINLKKLHE EEILNLKLK LKELENLTN GPNFSVVDT 
      RKLAMMKDL ELKQEEIER LTQKLVNVP NLEQELQTK 
      QQQIDDFKL DILAAKNRE SDLIDEIQS MKTTTTDLQ 
      SKLDNLTKE NAKLVQSST AAQTYDQLL KLKETEILK 
      LKEEQQRTA FVESTLSDE IKTLKSQLK ELQDKYNPR 
      LAEDYAQSR AQLSVAQRT ITALEQERE QKIKEIEDL 
      RKLLQENTS ANDEMFALK EQIEVYKND FEAEKKSKL 
      AMKQEKDQV VEDLQNLQT RNKQLQNEV ERLRARNEP 
      PRAEGYQCP KCSFGFNNY QSLENHVHR CLDLDGFP
    CDS sequence
    • >TC000541 RA
      atgagtcgt gacgagtcc ttcgttgct gtgaaaaac 
      actgcagag tccatggtt ccgtcaatc gggtccgat 
      gatgaagat tcatttgtc gttttggaa acttcaaat 
      tccatcagc gaaagtttg tcttgcagc cctccaagg 
      gacgaaatc ttgccccca ataaggaca aataaggtt 
      cacgaaatg gaaaatcta atcaggatg aaaatatca 
      caaattacc gttgatccg ttgccagaa ttaccagca 
      gctgttgat gcgattgtg ccctcagtt gcaagtatt 
      gcaatatcg ccggattcg tcgtatgaa gagattcaa 
      aaacaagtg gaagaactg attaaggaa aacgaaaag 
      ttgaagaat atcatcgca caaaataac atgagtatg 
      aaggcgcag tatacgagg tttttggcc tacagggat 
      gaggtcacc aatgtgatg aagtcctac aaagataag 
      ttcaacgat gccaaaatg tgcatagat aagtataaa 
      gaagaaaat gcaaagttg gttagtgac gttgaagtt 
      tacatcaat cttaaaaag ctccatgaa gaagaaatc 
      ttgaatttg aaactgaag cttaaggaa ttggaaaat 
      ttgaccaac ggccccaac ttttcagtt gttgacaca 
      aggaaatta gcaatgatg aaggattta gaactgaaa 
      caggaagaa attgaaaga ctgacgcaa aaattggtg 
      aatgtaccg aaccttgaa caggaatta caaaccaag 
      cagcaacaa attgacgac tttaaactg gatattctc 
      gccgcaaaa aatcgcgaa agcgaccta attgacgaa 
      atccagtca atgaagaca acaaccacc gacctccaa 
      tcaaaattg gataattta acaaaagaa aacgcaaaa 
      ctcgtccaa tcatcgacg gcagcccaa acctacgac 
      cagctcctc aaactgaaa gaaacggaa atcttgaaa 
      ctgaaggaa gaacaacaa cgcaccgct ttcgtcgaa 
      tccaccctc agtgatgag ataaaaacc ctaaaatcg 
      caacttaag gagctccaa gacaagtac aacccgcgt 
      ttggccgaa gattatgcc caatcccgg gcccagttg 
      agcgttgcc caaaggaca atcacagca ttggaacag 
      gaaagggaa cagaagatt aaagaaatc gaagatttg 
      cgtaaacta cttcaagaa aatacaagt gccaacgac 
      gaaatgttc gcattgaag gaacaaatc gaagtgtat 
      aagaacgat tttgaagca gagaagaag agcaaactt 
      gcgatgaaa caagagaag gaccaggtt gttgaagat 
      ttgcagaat ctgcaaacg aggaacaaa caactgcag 
      aatgaagtg gagaggctg agggcgagg aacgagccg 
      ccgagggcc gaggggtat cagtgcccc aagtgctcg 
      ttcggattt aataattac cagtcattg gaaaatcat 
      gttcatagg tgcttggat ttggacggt tttccctaa
    mRNA sequence
    • >TC000541 RA
      ctacagttg tgtcccaaa tgaaatttt acgtaaata 
      gttatgcca caataacat ttttagagc tttaatatt 
      cttaaaaaa ttaaattaa ggctaaggc gacttttta 
      ttggtccgg ttggtagca gtgtcttta atcgtgtgt 
      cagtagttt ggtattttc atattctat gttctaatt 
      cattctatt ttgcgccgc aaatgtagt gttgtactg 
      cagctgttg ttaaaactt gaaagtcat caaaaatga 
      gtcgtgacg agtccttcg ttgctgtga aaaacactg 
      cagagtcca tggttccgt caatcgggt ccgatgatg 
      aagattcat ttgtcgttt tggaaactt caaattcca 
      tcagcgaaa gtttgtctt gcagccctc caagggacg 
      aaatcttgc ccccaataa ggacaaata aggttcacg 
      aaatggaaa atctaatca ggatgaaaa tatcacaaa 
      ttaccgttg atccgttgc cagaattac cagcagctg 
      ttgatgcga ttgtgccct cagttgcaa gtattgcaa 
      tatcgccgg attcgtcgt atgaagaga ttcaaaaac 
      aagtggaag aactgatta aggaaaacg aaaagttga 
      agaatatca tcgcacaaa ataacatga gtatgaagg 
      cgcagtata cgaggtttt tggcctaca gggatgagg 
      tcaccaatg tgatgaagt cctacaaag ataagttca 
      acgatgcca aaatgtgca tagataagt ataaagaag 
      aaaatgcaa agttggtta gtgacgttg aagtttaca 
      tcaatctta aaaagctcc atgaagaag aaatcttga 
      atttgaaac tgaagctta aggaattgg aaaatttga 
      ccaacggcc ccaactttt cagttgttg acacaagga 
      aattagcaa tgatgaagg atttagaac tgaaacagg 
      aagaaattg aaagactga cgcaaaaat tggtgaatg 
      taccgaacc ttgaacagg aattacaaa ccaagcagc 
      aacaaattg acgacttta aactggata ttctcgccg 
      caaaaaatc gcgaaagcg acctaattg acgaaatcc 
      agtcaatga agacaacaa ccaccgacc tccaatcaa 
      aattggata atttaacaa aagaaaacg caaaactcg 
      tccaatcat cgacggcag cccaaacct acgaccagc 
      tcctcaaac tgaaagaaa cggaaatct tgaaactga 
      aggaagaac aacaacgca ccgctttcg tcgaatcca 
      ccctcagtg atgagataa aaaccctaa aatcgcaac 
      ttaaggagc tccaagaca agtacaacc cgcgtttgg 
      ccgaagatt atgcccaat cccgggccc agttgagcg 
      ttgcccaaa ggacaatca cagcattgg aacaggaaa 
      gggaacaga agattaaag aaatcgaag atttgcgta 
      aactacttc aagaaaata caagtgcca acgacgaaa 
      tgttcgcat tgaaggaac aaatcgaag tgtataaga 
      acgattttg aagcagaga agaagagca aacttgcga 
      tgaaacaag agaaggacc aggttgttg aagatttgc 
      agaatctgc aaacgagga acaaacaac tgcagaatg 
      aagtggaga ggctgaggg cgaggaacg agccgccga 
      gggccgagg ggtatcagt gccccaagt gctcgttcg 
      gatttaata attaccagt cattggaaa atcatgttc 
      ataggtgct tggatttgg acggttttc cctaaatat 
      attttttga ctagtattt gtttattgt tcttatata 
      aatatctaa aggaattaa taagtttaa caaggccat 
      cgtaattgt ttggaaatg tattatttt gtagttact 
      gttcctcgt ttacaacaa taaatacga gttaataaa 
      gttcttatt tgtct
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY