Status
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Gene information
General information
TC005330 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: 14385526..14389172
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
    TC005330
    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_09424

    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 (11 dpi)
    Days post injection


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    head capsule size decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    antenna shape irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    antenna antennal flagellum not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    legs size decreased -
    legs tibiotarsus potentially fused - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    legs femur potentially fused - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    urogomphi orientation irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    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
    • >TC005330 RA
      MEAPKTSDV VLIGGNSHP ELVNLISQR LGVKFGGCA 
      VYHKTNRET MVEIGDSVR GKDIYIIQT GTKDVNNNI 
      MELLIMAYA CKTSSAKSI VGVIPYLPY SKQCKMRKR 
      GSIVSKLLA QMMVKSGLT HIITMDLHQ KEIQGFFDC 
      PVDNLRASP FLLQYIQES IPDYRNSVI VARNPGTAK 
      KATSYAERL RLGIAVIHG EQKVAESDE VDGRYSPPT 
      IPRSRTMDA GVGVPVHIA KEKPPINVV GDVGGRIAI 
      MVDDLIDDV QSFVTAAEV LKERGAYKI YVLATHGLL 
      SSDAPRLIE DSPIDEVVV TNTIPHELQ KMQCHKIKT 
      VDISILLSE AIRRIHNKE SMSYLFKNV TLED
    CDS sequence
    • >TC005330 RA
      atggaggca cccaaaacc tctgatgtg gtcttgata 
      ggtggcaat tcacaccca gaattggtc aacctaatt 
      tcgcaacgt ttgggggtt aaattcggg ggctgtgcc 
      gtctaccac aaaaccaac cgggagacc atggtggaa 
      atcggtgat tcggtgcga gggaaggat atttacatt 
      attcaaacg ggtaccaaa gacgtaaat aacaatatt 
      atggagctt ctaatcatg gcatatgct tgtaagact 
      tcctcggcc aagtccatt gtgggggtt attccctac 
      ctcccctac agcaaacaa tgcaagatg cggaaacgc 
      gggagcatt gtctcgaaa cttctggcc cagatgatg 
      gtaaaatct gggctcacc catatcatc accatggac 
      ctccaccag aaggagatc cagggcttt ttcgactgt 
      ccagtcgac aacctacgc gctagtccc ttcctcctc 
      caatatatc caagaaagt attccagac taccgcaac 
      tccgtcata gtggcccgc aatccagga acggccaaa 
      aaggccact tcctacgcg gaacgtctc cgactgggg 
      attgcagtg atccatggg gagcaaaaa gtggcagaa 
      tcggacgaa gtggatggg aggtactcc cccccgacc 
      atcccccgg tccaggacc atggacgca ggcgtgggg 
      gtcccagtc cacatcgct aaagaaaag cccccaatt 
      aatgtggtc ggcgatgta gggggccgt atcgctatc 
      atggtggac gacttgatt gatgatgtc cagtccttt 
      gtgacagct gctgaagtt ttgaaggaa cgtggggct 
      tacaaaatt tacgttttg gctactcat ggcctacta 
      tcgtctgat gcgccgagg ctaattgag gattcaccc 
      attgatgaa gttgtggtg acaaatacg attccgcac 
      gaattgcaa aaaatgcaa tgtcataaa atcaaaacg 
      gtggatata tcgattttg ttgtcggaa gcgatcagg 
      agaattcac aacaaagaa tcaatgtcg tatctattc 
      aaaaatgtc acgcttgaa gattaa
    mRNA sequence
    • >TC005330 RA
      ctgtttgat ttatttcat tggaaaata attaattct 
      ttcttccaa cttgtaaca tttctggat ttttgtggc 
      aaacaactt tcttatatt atcattggg aaaaactct 
      caactttcc ccagacaaa taactaaaa catttttat 
      gattttttt caagaaaca gctacaaaa atggacttt 
      tactgtatc tccaagttg aaaattcgg agcaggctt 
      gtgttcaag ctgactgga tgcaaattt tgtatcatt 
      tgaatctgt agattgggt catatttga attattctt 
      tgcagtttt tgtaacatt agttagtcc tggtgggac 
      aaaacagtc catacaact tgtaccatc atcaactag 
      aaatctttt aagcacaaa ttaattgag aaaaaaaac 
      ttacttgtg tattttata aacgtatcg agtttgcta 
      cctgatgct tcggtgatt gttgcacaa acgaggact 
      tcaacaaaa tattttcct cgctgagaa aaaatttta 
      ccgtgttgt tcggccgat aataattca attattggc 
      agttttact aattccaac cggatgtct tttctagcc 
      atctcttca acattgagg ttatgtaat gtcgcaaaa 
      aaaaacgct caatgattt taattacaa tttttattt 
      cattagttg aattaatac aacattatt tcgtattat 
      gggcacatg tatttgtga tttttgtcg tagaattgt 
      tgcaaccaa tgcttaaaa atggcatca attcccgcg 
      aaatcaata ctaccaact cctgttacc agctgttac 
      gaagtgtca acaacaaat ttataatta gaataaaca 
      ttcgcaaaa agtgaataa acacgccta atttaaatt 
      ctgtccttg tcggcgtgt tgtagtttt taattttgg 
      aaacacgtg tggtggttt ttttgcaga tttttgcaa 
      aaaacatcg ctttgtttt ttaatgttc ggcatttca 
      cacttttaa ccgaattat ggaggcacc caaaacctc 
      tgatgtggt cttgatagg tggcaattc acacccaga 
      attggtcaa cctaatttc gcaacgttt gggggttaa 
      attcggggg ctgtgccgt ctaccacaa aaccaaccg 
      ggagaccat ggtggaaat cggtgattc ggtgcgagg 
      gaaggatat ttacattat tcaaacggg taccaaaga 
      cgtaaataa caatattat ggagcttct aatcatggc 
      atatgcttg taagacttc ctcggccaa gtccattgt 
      gggggttat tccctacct cccctacag caaacaatg 
      caagatgcg gaaacgcgg gagcattgt ctcgaaact 
      tctggccca gatgatggt aaaatctgg gctcaccca 
      tatcatcac catggacct ccaccagaa ggagatcca 
      gggcttttt cgactgtcc agtcgacaa cctacgcgc 
      tagtccctt cctcctcca atatatcca agaaagtat 
      tccagacta ccgcaactc cgtcatagt ggcccgcaa 
      tccaggaac ggccaaaaa ggccacttc ctacgcgga 
      acgtctccg actggggat tgcagtgat ccatgggga 
      gcaaaaagt ggcagaatc ggacgaagt ggatgggag 
      gtactcccc cccgaccat cccccggtc caggaccat 
      ggacgcagg cgtgggggt cccagtcca catcgctaa 
      agaaaagcc cccaattaa tgtggtcgg cgatgtagg 
      gggccgtat cgctatcat ggtggacga cttgattga 
      tgatgtcca gtcctttgt gacagctgc tgaagtttt 
      gaaggaacg tggggctta caaaattta cgttttggc 
      tactcatgg cctactatc gtctgatgc gccgaggct 
      aattgagga ttcacccat tgatgaagt tgtggtgac 
      aaatacgat tccgcacga attgcaaaa aatgcaatg 
      tcataaaat caaaacggt ggatatatc gattttgtt 
      gtcggaagc gatcaggag aattcacaa caaagaatc 
      aatgtcgta tctattcaa aaatgtcac gcttgaaga 
      ttaagcatt tcgcatatc ttattaagt attaaactt 
      gtttttttt ttcatgtca agtattttt gcatctttt 
      ctttctatg gcgtaaata aagtgatta aaaagca
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY