Status
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Gene information
General information
TC034298
Former TC numbers

If one gene is splitted or genes are merged, the original TC numbers are listed. One listed former TC number indicates the previous gene has be splitted, serveral former TC number represents a merged gene.

TC012340
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_007424.3: 5071168..5072411
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
    TC034298
    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_09453

    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: 2 (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: < 20
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 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
    • >TC034298 RA
      MFSRNNRQV LKQIVPKLE ILLRNKSTV NYQEIRIPV 
      PWGHVAGKW WGPTDRRPI LTVHGWQDN CGSFNRLVP 
      LLNKNVGFL AIDWPGHGH SSRIPSGLY CHFTNYLIL 
      VQYLVNYFN WPKVSLLGH SMGGITSYV YTMVYPKNV 
      DFLICLDGA KPMISEDNI PRIARNITK FSRYEQFER 
      SNVEPPSYT MEEIKEKVC APNNKSVAY EHAHHLIER 
      NVAPSKNNP GKYYFTRDP RLKAGELMN WPQEESMSL 
      TKSMTCPVF IGKAISGSY YEVKKNFYD VLEVLKKSS 
      VDCQYHRLE GTHHFHLNN PETLAELIT KFIDKHNVE 
      SREIGGIKE EMRQMATA
    CDS sequence
    • >TC034298 RA
      atgttctct cggaacaat cggcaagtc ttgaagcaa 
      attgtacca aaattggag attttactt agaaataaa 
      tcaacagtt aattaccag gaaattagg atccctgta 
      ccgtggggc cacgttgca ggcaagtgg tggggcccc 
      acagaccgg cggccgatt ctcaccgtc cacgggtgg 
      caggacaac tgcggctca tttaaccga ttagtcccg 
      cttttgaac aaaaatgtg ggctttctg gccatagac 
      tggcccggc catggccac tcctcgcga attcccagc 
      ggcctctat tgccacttc acaaattac ctcatcctg 
      gttcagtat ttggtcaat tacttcaac tggcctaaa 
      gtctccctc cttggccac tccatgggg ggcataacg 
      tcctacgtt tacaccatg gtctacccc aaaaacgtc 
      gacttcctc atttgcctc gacggcgcc aaacccatg 
      atttccgaa gacaacatc ccccgaatc gcccgaaat 
      ataactaag ttttcgaga tacgaacag ttcgagcgg 
      agcaatgtg gagcccccc agctacacg atggaagaa 
      atcaaggaa aaggtctgc gccccgaat aacaaatcc 
      gtggcgtac gaacacgcg catcatttg atcgaacgc 
      aatgttgct ccctcgaaa aataatccg gggaagtac 
      tactttacg cgcgacccg cgattaaag gcgggggag 
      ttgatgaat tggccgcag gaggagtcg atgagtctt 
      acgaaatcg atgacatgt ccggtgttt atcggcaaa 
      gccattagt ggctcgtat tacgaagtt aaaaagaat 
      ttttacgat gtgttggaa gtgcttaag aaaagcagt 
      gtggactgc cagtatcac aggctggag ggcacgcat 
      catttccat ctgaataat cccgagacg ttggcggag 
      ttgataacc aagtttatt gataagcac aatgtggag 
      agtcgggaa attggaggt atcaaggaa gagatgaga 
      cagatggcg accgcataa
    mRNA sequence
    • >TC034298 RA
      aataacctc aatttttat tacatcatg tttgtatat 
      cataaaatg tgaactccc aatttctca tctagatta 
      ttgaaacag ttaaaaatg ttctctcgg aacaatcgg 
      caagtcttg aagcaaatt gtaccaaaa ttggagatt 
      ttacttaga aataaatca acagttaat taccaggaa 
      attaggatc cctgtaccg tggggccac gttgcaggc 
      aagtggtgg ggccccaca gaccggcgg ccgattctc 
      accgtccac gggtggcag gacaactgc ggctcattt 
      aaccgatta gtcccgctt ttgaacaaa aatgtgggc 
      tttctggcc atagactgg cccggccat ggccactcc 
      tcgcgaatt cccagcggc ctctattgc cacttcaca 
      aattacctc atcctggtt cagtatttg gtcaattac 
      ttcaactgg cctaaagtc tccctcctt ggccactcc 
      atggggggc ataacgtcc tacgtttac accatggtc 
      taccccaaa aacgtcgac ttcctcatt tgcctcgac 
      ggcgccaaa cccatgatt tccgaagac aacatcccc 
      cgaatcgcc cgaaatata actaagttt tcgagatac 
      gaacagttc gagcggagc aatgtggag ccccccagc 
      tacacgatg gaagaaatc aaggaaaag gtctgcgcc 
      ccgaataac aaatccgtg gcgtacgaa cacgcgcat 
      catttgatc gaacgcaat gttgctccc tcgaaaaat 
      aatccgggg aagtactac tttacgcgc gacccgcga 
      ttaaaggcg ggggagttg atgaattgg ccgcaggag 
      gagtcgatg agtcttacg aaatcgatg acatgtccg 
      gtgtttatc ggcaaagcc attagtggc tcgtattac 
      gaagttaaa aagaatttt tacgatgtg ttggaagtg 
      cttaagaaa agcagtgtg gactgccag tatcacagg 
      ctggagggc acgcatcat ttccatctg aataatccc 
      gagacgttg gcggagttg ataaccaag tttattgat 
      aagcacaat gtggagagt cgggaaatt ggaggtatc 
      aaggaagag atgagacag atggcgacc gcataatgc 
      gttctttgt attatctgt tgatttttt ttatctctg 
      ttgatcgga gattttttt atttaaact gaataaatg 
      cgtttgttg tgt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY