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Gene information
General information
TC001960 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_007418.3: 19259995..19261796
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
    TC001960
    iBeetle screen iB_03278

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    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
    • >TC001960 RA
      MDYLSEPLK ERTLGDGID SSILKVTEA ALSQKIPKM 
      INHPITFKP IEPKHQIHN LKPVYVSKE RKQPKWLIR 
      KPKEPKFVP YEPYKGAVE PIIAHKSEI KAKPSKNNV 
      EIQDLVKQM TDLRCAELS KASKEAAQN EEELIPRKK 
      WEEERSAYE TDIKNLRET NSLLENQIK FQTQVNSEL 
      KTLLVAAVG EDLESRVQH LTEDKLQLA RALLNSANH 
      LTSHQEQTE WLSGQCEVW RSKFLASSL MVEELARWK 
      SALSNRINE LQEVAKKLL DERYRVQKK LMKSCVILH 
      GVEARLCES PKARDSAKS SNVVDLSQV ICDLSQEIS 
      DLVVIDKGK SDDLYAIYS SLGQYTPAE RSAMKLLQN 
      PVTISNKQD AICNALMGT AMSLSGEQV YLKHPSSQA 
      SCCPHCTGE VKNI
    CDS sequence
    • >TC001960 RA
      atggattat ttatcagag cccctaaag gagcgcacc 
      ctcggtgac ggcattgac agctcaatt ctcaaagtc 
      acggaagct gccctcagt cagaaaatc ccaaaaatg 
      ataaaccat ccaatcaca tttaaacca attgaaccc 
      aaacatcag attcacaac ctgaaacct gtgtacgtg 
      agcaaggag aggaaacag ccaaagtgg ctcatcagg 
      aagcccaaa gagcccaaa tttgtacct tacgagcct 
      tacaagggg gccgtggag cccatcata gcccacaaa 
      tccgaaatt aaggcaaaa ccatcgaaa aataatgtc 
      gaaattcag gatttggtt aaacaaatg acggactta 
      cgctgcgct gagttgagt aaagccagc aaggaggcg 
      gcgcaaaac gaggaggag ttgatcccc aggaaaaag 
      tgggaggag gagaggagc gcctacgag acagatatt 
      aaaaatttg agggagacc aactcgctt ctggagaac 
      caaatcaag ttccaaaca caggtgaat agtgagctg 
      aagacgttg ctggtggcc gcagttggc gaggatttg 
      gaaagtcgc gtgcaacac ttaacggag gataagttg 
      caactagcc cgggcttta ctcaactcg gccaaccac 
      ttgacgtca caccaggag caaacggag tggctgtcg 
      ggccagtgc gaggtctgg aggagcaaa ttcttggcc 
      tcaagttta atggtcgag gagttggcg cggtggaag 
      tccgccctc tcaaaccgc atcaacgag ttgcaagaa 
      gtcgcgaaa aaactcctc gatgagcgg taccgtgtc 
      cagaaaaaa ctgatgaag agttgtgtt attttacac 
      ggagttgaa gcgcgattg tgtgaatcc cccaaagcg 
      cgggatagc gccaaaagt tcaaatgtg gtcgatttg 
      agtcaggtg atttgtgat ctgagtcag gaaattagc 
      gatttggtt gttatagat aaggggaaa agtgatgat 
      ttgtatgcg atttactca agtttgggg caatatacg 
      ccagcggag agaagtgca atgaagttg cttcagaat 
      ccggtcacg atttcgaat aaacaggac gcgatttgt 
      aatgcttta atggggact gcgatgtct ttaagtggc 
      gaacaagtc tatcttaaa catccttcc agtcaagcg 
      agttgttgt ccacattgc actggagaa gttaagaat 
      atttga
    mRNA sequence
    • >TC001960 RA
      tcaatcagc tgtttttga cattggttg ggtcaatga 
      cccctcatt tgctttcaa gtgccttta atccccttt 
      tataacaaa cgcaataaa acccaatta tcaattctg 
      tgctcattt tcccgacat ggattattt atcagagcc 
      cctaaagga gcgcaccct cggtgacgg cattgacag 
      ctcaattct caaagtcac ggaagctgc cctcagtca 
      gaaaatccc aaaaatgat aaaccatcc aatcacatt 
      taaaccaat tgaacccaa acatcagat tcacaacct 
      gaaacctgt gtacgtgag caaggagag gaaacagcc 
      aaagtggct catcaggaa gcccaaaga gcccaaatt 
      tgtacctta cgagcctta caagggggc cgtggagcc 
      catcatagc ccacaaatc cgaaattaa ggcaaaacc 
      atcgaaaaa taatgtcga aattcagga tttggttaa 
      acaaatgac ggacttacg ctgcgctga gttgagtaa 
      agccagcaa ggaggcggc gcaaaacga ggaggagtt 
      gatccccag gaaaaagtg ggaggagga gaggagcgc 
      ctacgagac agatattaa aaatttgag ggagaccaa 
      ctcgcttct ggagaacca aatcaagtt ccaaacaca 
      ggtgaatag tgagctgaa gacgttgct ggtggccgc 
      agttggcga ggatttgga aagtcgcgt gcaacactt 
      aacggagga taagttgca actagcccg ggctttact 
      caactcggc caaccactt gacgtcaca ccaggagca 
      aacggagtg gctgtcggg ccagtgcga ggtctggag 
      gagcaaatt cttggcctc aagtttaat ggtcgagga 
      gttggcgcg gtggaagtc cgccctctc aaaccgcat 
      caacgagtt gcaagaagt cgcgaaaaa actcctcga 
      tgagcggta ccgtgtcca gaaaaaact gatgaagag 
      ttgtgttat tttacacgg agttgaagc gcgattgtg 
      tgaatcccc caaagcgcg ggatagcgc caaaagttc 
      aaatgtggt cgatttgag tcaggtgat ttgtgatct 
      gagtcagga aattagcga tttggttgt tatagataa 
      ggggaaaag tgatgattt gtatgcgat ttactcaag 
      tttggggca atatacgcc agcggagag aagtgcaat 
      gaagttgct tcagaatcc ggtcacgat ttcgaataa 
      acaggacgc gatttgtaa tgctttaat ggggactgc 
      gatgtcttt aagtggcga acaagtcta tcttaaaca 
      tccttccag tcaagcgag ttgttgtcc acattgcac 
      tggagaagt taagaatat ttgatatta aatataaat 
      tttgttttt tatacaata ataaatcaa tttttacta 
      t
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY