Status
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Gene information
General information
TC005506 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: 11978022..11980729
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
    TC005506
    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_08934

    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: 1 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 2 (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
    • >TC005506 RA
      MEELQLSET LQRYFSDVF LCCDEEKSG SASLTKTVE 
      LIKSGNVPE DIISQISEI CWGQTTTSL SRKQFFSAL 
      KLVAAYQAN MPLNADVVT SNLELPLPR FTWNNLESD 
      SQVPDLIEL RNDANYVEQ VDANSTDSE VDSDTLSIV 
      RNGSPEISS TASDSPTPT NSVQDRSWA IGGAWQGLV 
      SEEQRQLLG TEEESSDRH SSEEDTEVS PEIWTINPE 
      QRDYYTKQF RSLQPDTNA LLAGPVARM FFEKSRLPV 
      HELRKIWQL ADVTKDGAL SLQEFNTAM HLVVLRRNH 
      IELPDVLPP TLIPGNETP LSVSPETEP MLSPQTKDT 
      AKEWTKFVD SPTSSVSSP GPKPVNFDF QKITLDKDS 
      KILHPVPLR ITPECPMAP PGEDSVDNA EAHSPKKFT 
      DNSAIQRPQ PKKISIPGP GAIPPPPTT QTGDEGPVS 
      LPVFPPPKK EKPPPPPPR PFKSHGRSS SLDLNRLSK 
      LGAPPTIPP RVSPNIQSK KLTNQKSEG DAFANFDSF 
      EKYENVDEG IFPGDLYEA ERKKIFARF TELPRKHGA 
      FEVYRKPAK NQEGGQDEK AKWELFQML QEENTVLLR 
      ICQELSQEL ADIREEKMT LKLRLEKQL SLG
    CDS sequence
    • >TC005506 RA
      atggaggag ttacagctg tcagaaact ttacaacga 
      tatttttcc gacgttttt ctttgttgt gacgaggaa 
      aaatccggg agcgcctcc ttgaccaaa accgtcgaa 
      ttaatcaag tcgggcaac gtgcccgaa gacatcata 
      tcccaaatt tcagagatc tgttggggc caaaccacg 
      accagtttg tctaggaag caatttttt tccgctttg 
      aaattagtc gccgcctat caggccaac atgccgtta 
      aatgccgac gtagtcact tccaatttg gagttgcct 
      ttgcccagg tttacttgg aataatttg gagagtgat 
      tcacaagtt cctgattta atcgaactg agaaacgat 
      gccaattat gttgaacaa gtcgatgcg aacagcacc 
      gactcggaa gtcgatagt gatacgctt agtatagtt 
      aggaacgga tcgcccgaa atttccagc accgcctct 
      gacagcccc acgcccacg aatagtgtg caggacagg 
      agctgggcc atcgggggg gcctggcag gggctggtc 
      tccgaagaa caaagacag cttctgggg actgaggag 
      gagtcgagc gaccggcac agcagcgag gaggacacg 
      gaagtgagc cccgagatc tggacgatc aaccccgag 
      cagcgcgac tactacacg aaacaattc cgctccctc 
      cagcccgac accaacgcc ttactcgcc ggtcccgtc 
      gcccgcatg tttttcgaa aaatcgcgc cttccagtc 
      cacgagctc cgcaagatc tggcagctg gccgacgtg 
      accaaagac ggcgccctc agccttcag gagttcaac 
      actgcgatg catctagtc gtcttgcgc cgcaaccac 
      atcgaactc cccgacgtc ctgccgccc accctcatc 
      cccggcaac gaaacgccc ctgtccgtg agccccgag 
      accgagccc atgctctcc ccccaaacg aaagacacc 
      gccaaagag tggacgaaa ttcgtcgac agccccacc 
      agctccgtt agttccccc ggccccaaa cccgtcaac 
      ttcgatttc cagaaaatc acactcgat aaagactcg 
      aaaatctta cacccagtc ccgcttcga atcacgcca 
      gagtgcccc atggcgccc ccgggcgaa gactccgtc 
      gataatgcg gaagcgcac agtccgaag aaattcacc 
      gataatagc gccatccag cggccgcag ccgaagaaa 
      atcagcata ccgggccct ggggcgatc cctccgccc 
      cccaccacg caaacgggg gatgaaggg ccggtcagt 
      ctcccggtt tttccccca cctaagaag gaaaaaccg 
      cccccgcct ccgcccaga ccgttcaaa agccacggc 
      cggagctcg tcgcttgat ttgaaccgg ttgagcaag 
      ttgggagcc ccgcccacg atcccgccc agagtcagt 
      cccaatatc caatcgaag aagctgacc aatcagaag 
      tcggaaggg gacgccttt gccaacttt gatagtttc 
      gagaagtat gaaaatgtg gacgagggg atttttccg 
      ggtgatttg tatgaagcg gagagaaag aagattttt 
      gcgaggttt actgaattg ccaagaaaa cacggggcg 
      tttgaggtt tatcgaaaa ccggccaag aatcaagaa 
      ggcgggcaa gacgagaag gccaagtgg gagttgttt 
      caaatgttg caggaggag aatacggtg ctgttgagg 
      atttgtcaa gagttgagt caagaactg gccgatatt 
      cgggaagag aaaatgacg ctaaagttg agattagaa 
      aaacaatta agtctggga tag
    mRNA sequence
    • >TC005506 RA
      catcagctg tcaaaaatg gaggagtta cagctgtca 
      gaaacttta caacgatat ttttccgac gtttttctt 
      tgttgtgac gaggaaaaa tccgggagc gcctccttg 
      accaaaacc gtcgaatta atcaagtcg ggcaacgtg 
      cccgaagac atcatatcc caaatttca gagatctgt 
      tggggccaa accacgacc agtttgtct aggaagcaa 
      tttttttcc gctttgaaa ttagtcgcc gcctatcag 
      gccaacatg ccgttaaat gccgacgta gtcacttcc 
      aatttggag ttgcctttg cccaggttt acttggaat 
      aatttggag agtgattca caagttcct gatttaatc 
      gaactgaga aacgatgcc aattatgtt gaacaagtc 
      gatgcgaac agcaccgac tcggaagtc gatagtgat 
      acgcttagt atagttagg aacggatcg cccgaaatt 
      tccagcacc gcctctgac agccccacg cccacgaat 
      agtgtgcag gacaggagc tgggccatc gggggggcc 
      tggcagggg ctggtctcc gaagaacaa agacagctt 
      ctggggact gaggaggag tcgagcgac cggcacagc 
      agcgaggag gacacggaa gtgagcccc gagatctgg 
      acgatcaac cccgagcag cgcgactac tacacgaaa 
      caattccgc tccctccag cccgacacc aacgcctta 
      ctcgccggt cccgtcgcc cgcatgttt ttcgaaaaa 
      tcgcgcctt ccagtccac gagctccgc aagatctgg 
      cagctggcc gacgtgacc aaagacggc gccctcagc 
      cttcaggag ttcaacact gcgatgcat ctagtcgtc 
      ttgcgccgc aaccacatc gaactcccc gacgtcctg 
      ccgcccacc ctcatcccc ggcaacgaa acgcccctg 
      tccgtgagc cccgagacc gagcccatg ctctccccc 
      caaacgaaa gacaccgcc aaagagtgg acgaaattc 
      gtcgacagc cccaccagc tccgttagt tcccccggc 
      cccaaaccc gtcaacttc gatttccag aaaatcaca 
      ctcgataaa gactcgaaa atcttacac ccagtcccg 
      cttcgaatc acgccagag tgccccatg gcgcccccg 
      ggcgaagac tccgtcgat aatgcggaa gcgcacagt 
      ccgaagaaa ttcaccgat aatagcgcc atccagcgg 
      ccgcagccg aagaaaatc agcataccg ggccctggg 
      gcgatccct ccgcccccc accacgcaa acgggggat 
      gaagggccg gtcagtctc ccggttttt cccccacct 
      aagaaggaa aaaccgccc ccgcctccg cccagaccg 
      ttcaaaagc cacggccgg agctcgtcg cttgatttg 
      aaccggttg agcaagttg ggagccccg cccacgatc 
      ccgcccaga gtcagtccc aatatccaa tcgaagaag 
      ctgaccaat cagaagtcg gaaggggac gcctttgcc 
      aactttgat agtttcgag aagtatgaa aatgtggac 
      gaggggatt tttccgggt gatttgtat gaagcggag 
      agaaagaag atttttgcg aggtttact gaattgcca 
      agaaaacac ggggcgttt gaggtttat cgaaaaccg 
      gccaagaat caagaaggc gggcaagac gagaaggcc 
      aagtgggag ttgtttcaa atgttgcag gaggagaat 
      acggtgctg ttgaggatt tgtcaagag ttgagtcaa 
      gaactggcc gatattcgg gaagagaaa atgacgcta 
      aagttgaga ttagaaaaa caattaagt ctgggatag 
      ttgagatga atcaaaatg ctatttaag ttgaatctc 
      caggtatta ttaaggccg acagtgcca taaactgcc 
      taaattgtt caattatgt ttatcattg agtgaaaga 
      atatttttt taatgacgt tatcaaatc atatttgaa 
      agaatctat atgttggtc agatttagg ttgtttata 
      ttatatatg gctctattg cagcaaagt cttatattt 
      tttcgtgta gctatagga agactgtat tttaagatt 
      aaataaata ctttaaaat tat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY