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Gene information
General information
TC004238 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.

NW_015451620.1: 66061..71023
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
    TC004238
    iBeetle screen iB_06073

    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: 40.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    adult lethality immediately after eclosion - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection


    Fertility
    mature egg deposition blocked number 1st lateral oviduct: >5 number 2nd lateral oviduct: - Number of animals showing the phenotype: 3
    ovary without detectable defects - Number of animals showing the phenotype: 1
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 20 embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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): more than 80%
    affected eggs/embryos/larvae - 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: % (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
    • >TC004238 RA
      MLKIETNHT CGKPLNGFS NPLPQNRNH EEYQYLSHI 
      RQILEKGVQ RMDRTRIGT LSIFGVQMR YSLRDNVFP 
      LLTTKRVFW RAVVEELLW FIKGSTNSN DLKEKNVHI 
      WDANSSRAF LDSVGLEEY EEGDLGPIY GFQWRHFGA 
      EYKGVQGDY TNEGVDQLA RVIHTIRTN PNDRRIIMS 
      AWNPKDLHK MALPPCHCL AQFFVAEGE LSCLLYQRA 
      GDMGLGVPF NIASYALLT RMIAHVTGL KPGEFIHSI 
      GDSHVYLNH VEPIKEQLT RVPRAFPTL NIKRPVSSI 
      DDFTFEDFE LVGYNPHPK LYLPMAL
    CDS sequence
    • >TC004238 RA
      atgttaaaa atcgaaacc aaccacact tgtggcaaa 
      cccctgaac ggtttctcc aaccccctc ccccagaac 
      cggaaccat gaggagtac cagtacctc tcccacatc 
      cgccagatc ctggaaaag ggggtccag aggatggac 
      aggacccgc atcgggact ctgtcgatt ttcggggtc 
      cagatgcgc tactccctc cgggataac gtgtttccg 
      ctgctgacc accaagcgg gttttctgg cgcgctgtc 
      gtcgaggag ctgctctgg ttcatcaaa ggctcgacg 
      aattcgaac gacctcaag gagaaaaac gtgcacatt 
      tgggacgcc aacagcagt cgcgcgttt ctggactca 
      gtgggcttg gaggagtac gaggagggg gacctgggg 
      cccatctac gggttccag tggcggcac tttggggcg 
      gagtacaag ggggtccag ggggactac acgaacgag 
      ggggtggac cagctggcg cgggtcata cacacgatt 
      aggacgaat ccgaacgat cggaggatt atcatgtcg 
      gcgtggaat ccgaaagat ttgcacaaa atggcgctg 
      ccgccatgt cactgtctg gcgcagttt ttcgtggcc 
      gagggcgag ctgagctgt ttgctgtac cagagggcg 
      ggggatatg ggcctgggg gtgccgttc aatatcgcc 
      agttatgcg cttcttaca aggatgatt gcacatgtt 
      acgggattg aagcctggg gagtttatt catagtatt 
      ggagatagt cacgtttat ttaaaccat gttgagccg 
      atcaaggag caattgact agagtacca agagcgttc 
      ccaacctta aatattaaa agacctgtt agcagtatt 
      gatgatttt acgtttgaa gattttgag cttgttggg 
      tacaatcca catccgaag ttgtatcta cctatggct 
      ttgtaa
    mRNA sequence
    • >TC004238 RA
      aaacttttc gtttatttt ctcacatgc tcaaattga 
      agtttcgga gcgcaacca caaacattc cttcggaca 
      atacaaagt taggttacc gtttacatt ccaaattcg 
      aagcaatag ccttaagaa cagaggaaa tatttcttg 
      atttgagca taagccgag ttgttcaaa cttttaatc 
      tacctcact tattacgcg gcttgttcg tggatgtgg 
      ggcgaggtt ttgccccat gttcgggtg agcctgtat 
      ttacagtaa tttaagtat tttcctaat atataataa 
      tgtttattt atgttatgt ctcagggca ttttagttg 
      atttagttt agttttttt ttatgaaat cgtttgctt 
      tattttctc gattgaaat atgtccatc cgatattat 
      ttaatttta ttgtttttt accgaaaag tctgatgcg 
      agaggctgc tagtttaaa ttttgtagc cacagactg 
      ttggtctgg cagggaatt gtgtttttt gagcacagt 
      tcttttttc tccacttac gttgattat tatgactat 
      tatacaaaa ctgtttgta atgcatgaa ttcttactg 
      tgggatcgg aagtaagta cttaatttg tttcacatt 
      ttacatgac aaatattta atgatgaat aatatggta 
      gcaataaaa tgacactac ttttttcca catttgtac 
      ataaaacgc aacaacgaa gcgatcgac tctaaagca 
      gtttgcaac taaatccca cagttttaa ttcggaatg 
      ttaagtact gttattgca actcatact gtaaattat 
      atttaaata aaaatggtg tagatgtgt taataatat 
      atttttgta cgcttgaat gaatgcgat attataatg 
      tattttaaa ataaagaat attcaaaaa tcggctgtt 
      tctctcacc taaaaacca accaactaa aaattattt 
      ttaaataaa agataattc agcttcgaa ctcctgaga 
      aaaaaaaat cacacacga ccttttatc cttgctgct 
      atatagatc cctcccagc ttgcttcta actcgtatt 
      tacgttttg tgcgcccgt cacaatgtt aaaaatcga 
      aaccaacca cacttgtgg caaacccct gaacggttt 
      ctccaaccc cctccccca gaaccggaa ccatgagga 
      gtaccagta cctctccca catccgcca gatcctgga 
      aaagggggt ccagaggat ggacaggac ccgcatcgg 
      gactctgtc gattttcgg ggtccagat gcgctactc 
      cctccggga taacgtgtt tccgctgct gaccaccaa 
      gcgggtttt ctggcgcgc tgtcgtcga ggagctgct 
      ctggttcat caaaggctc gacgaattc gaacgacct 
      caaggagaa aaacgtgca catttggga cgccaacag 
      cagtcgcgc gtttctgga ctcagtggg cttggagga 
      gtacgagga gggggacct ggggcccat ctacgggtt 
      ccagtggcg gcactttgg ggcggagta caagggggt 
      ccaggggga ctacacgaa cgagggggt ggaccagct 
      ggcgcgggt catacacac gattaggac gaatccgaa 
      cgatcggag gattatcat gtcggcgtg gaatccgaa 
      agatttgca caaaatggc gctgccgcc atgtcactg 
      tctggcgca gtttttcgt ggccgaggg cgagctgag 
      ctgtttgct gtaccagag ggcggggga tatgggcct 
      gggggtgcc gttcaatat cgccagtta tgcgcttct 
      tacaaggat gattgcaca tgttacggg attgaagcc 
      tggggagtt tattcatag tattggaga tagtcacgt 
      ttatttaaa ccatgttga gccgatcaa ggagcaatt 
      gactagagt accaagagc gttcccaac cttaaatat 
      taaaagacc tgttagcag tattgatga ttttacgtt 
      tgaagattt tgagcttgt tgggtacaa tccacatcc 
      gaagttgta tctacctat ggctttgta attttttta 
      tatttgaag gcactacca aacatttaa taattttta 
      tttataatg cggtttatt aaactggct tatgtacgt 
      tttagatgt aaataaata caaacattt tat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY