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Gene information
General information
TC003532 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: 6336675..6343769
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
    TC003532
    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
    If you paste here the relevant section of the reference it is for us a great help to review your annotation. The quotation may be also be displayed to the users of iBeetle-Base.
    Name
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    Email
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    Publish name
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_06944

    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)

    adult lethality - Number of animals showing the phenotype: 1 (9 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: < 20
    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
    • >TC003532 RA
      MFQSAGIIC AALILGIVV KCNARHGMD 
      HGQWAREKP IECYECNSE YDPRCGDPF 
      DPYTIGKVN CSMKRPLDH ILQEKPKLC 
      RKTVQKVQG HIRVIRGCG YIPHDWDDK 
      QCLLRAGTH DVHVKYCSC THSLCNTGS 
      FHSSPSRII TGGILLGVA RLILG
    CDS sequence
    • >TC003532 RA
      atgtttcaa agtgccgga atcatttgt gctgccctt 
      atacttgga attgtagtt aaatgtaat gccagacat 
      gggatggat catgggcag tgggctaga gagaaaccc 
      atagagtgt tacgaatgt aattcggag tatgatcct 
      agatgcggc gatccgttt gatccttac accatagga 
      aaagtgaat tgttcaatg aaaaggcct ttagatcac 
      attttacaa gaaaaacca aagctttgt aggaaaacc 
      gtgcagaaa gtccaaggg cacatccgg gtgatccga 
      ggctgtgga tacatccca cacgactgg gacgacaag 
      cagtgtcta ctaagagcg gggacccac gatgttcac 
      gttaaatac tgttcttgc acacatagt ctttgtaat 
      accgggagt tttcactct agtccatcg agaataatc 
      actggtgga atcctgtta ggagttgcg cgactaatc 
      ttgggataa
    mRNA sequence
    • >TC003532 RA
      ctcttgttg caagacagt tttatttag taaaaccat 
      ctgaaagcg ctctatttc gaaaaagct gcaaagtga 
      atccaatcg attcgacgc ttgatgacg tctttgcgt 
      agaggggag aatcagtga cgtcatgtc gtcttcctg 
      ctagtacaa ctaaatgtc gaacagata gggagacgt 
      caataccgc acttttcaa atcagtgca attagttaa 
      tgtgcgttt tttgtatga gttgggaca acaagatca 
      aagaaaatg tttcaaagt gccggaatc atttgtgct 
      gcccttata cttggaatt gtagttaaa tgtaatgcc 
      agacatggg atggatcat gggcagtgg gctagagag 
      aaacccata gagtgttac gaatgtaat tcggagtat 
      gatcctaga tgcggcgat ccgtttgat ccttacacc 
      ataggaaaa gtgaattgt tcaatgaaa aggccttta 
      gatcacatt ttacaagaa aaaccaaag ctttgtagg 
      aaaaccgtg cagaaagtc caagggcac atccgggtg 
      atccgaggc tgtggatac atcccacac gactgggac 
      gacaagcag tgtctacta agagcgggg acccacgat 
      gttcacgtt aaatactgt tcttgcaca catagtctt 
      tgtaatacc gggagtttt cactctagt ccatcgaga 
      ataatcact ggtggaatc ctgttagga gttgcgcga 
      ctaatcttg ggataaact ggtaatcaa aactggcat 
      caagtgaag acaccttca gaaaagtag ttcgtaaag 
      gctagcgca caagacttt tattttccg gttttaaac 
      agtatcatt tgtatataa acgtatggg gtctaatgg 
      ggtgtagca aaatcaaga gcctatttg tgcgagagt 
      ctaatttcc ggtaattat ggcaaatat atttttgat 
      tagtttaag agaaaccga tatcctact actaaagct 
      aagctttgt agataaaga gatgatttt tgattacag 
      tcgaagcta agctaagta attagaggg atgacgtta 
      tcgcctgct tggtggcag gtcttgtcc attaaacta 
      gcgtatagt gttaactgt aaaccatat aaactttgg 
      gtataagac aaatagaga ctgccatga catttgatc 
      gaatatttt caccaaacg gcgatgtgt ctctacagg 
      caactcacg aaggcctag ctccaacga tgataaata 
      aatcaaata catatctag ctatgcaag ggatatgac 
      cgtttggtg agaaagcat ttgatagat aaagtgaaa 
      atgtgcaat ctgtcgcaa cgctctgca agttttcgt 
      tcaattcac atcagtgtc gtaaaatct ctacatgtt 
      tcttataaa cggtaatga atgtgtaat atgcgtgaa 
      acactgcca gttttggcc ggaagtgcc atactagtc 
      atgcttgtc cgctagatt aagttaaga aagtcatct 
      tatgaaatg taattagga ttgttataa cttgtaatg 
      ttataaatg cactagacc tatgacatg taactctct 
      acagtgtgt tggaaattt tatttgcaa gattcacac 
      taaaacacc ggctcattt ttctacact tgacactcg 
      ctgttgact aaataaaat aaatttcca atacacccg 
      gaattatgc ctttgaaac caaaaagaa atgctgttt 
      tcgtcataa atgtggcat tttatttta ctaagtaca 
      aaaaagagt aatattgca ttgaaatta tctatttat 
      tataaatgt aaatataac tattgtttt tgaatggaa 
      aaatatgca tgttgttca taaatattt tttctcctt 
      aatgataac agaagggat attttaaat aacaaagat 
      gcttaaatg tgtttctcg tggaaacta aatatactt 
      tgtatataa gggtaataa tatacaata ataattgga 
      tctatttgg gtcatattt tttaaaata tttattttt 
      atgttgaaa aatgctgtg cacgctgct gtttgtcat 
      tgtacatgt tctgtagaa ttcaaaata aacattgtt 
      tcaccca
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY