Status
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Gene information
General information
TC032161
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.

TC000497
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_007417.3: 10580911..10584028
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
    TC032161
    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
    {{ goGene }}
    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_09657

    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: 3 (3 dpi)
    Days post injection


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


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%
    cuticle remnants with unidentifyable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    larva cuticle thinner - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 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
    • >TC032161 RA
      MNLIKTKPY APETIEFLR YSHCGFDGH DAKVWCTVF 
      LYCKTPDSR NGICKNIKE CDSFMKYVE NVDTQDPVV 
      RKYLKEYQC STNQDPVVK ICCPDEGKY SDIFTSNDV 
      HERFSNFFP DPGLGECGK QNSDNKIVG GTETYLDEF 
      PWLALLKYV NGNKIRYSC AGSLINEQY VLTAAHCVD 
      PQIIKQKEL GKLQNVILG EYDTRNETD CIYQKFGTD 
      CADPPQVFS AVDYIIHPN YDSSSMIND IAIIRLNRK 
      AKYSDYVQP ICLPPKNLK LQGNESFTI SGWGRTESE 
      ERSPVKRKA TVRYADKKR CDANNGRRG ISDRQICVG 
      QGDGVDSCY GDSGGPLML ETQTKNNSY ATFVVGLVS 
      YGYGRLCGN FPGVYTYLP AYLDWIEQQ MR
    CDS sequence
    • >TC032161 RA
      atgaatctg atcaaaacc aagccttac gccccggaa 
      acgatcgaa ttcctccgg tactctcac tgcgggttt 
      gatggtcac gatgccaaa gtctggtgc acggtgttt 
      ttatattgc aaaacgccc gattcccgg aatggaatt 
      tgtaaaaac atcaaagag tgcgattct ttcatgaag 
      tatgtggag aacgtggac acacaagac ccagtcgtg 
      cgaaaatac ctcaaggag taccagtgt agcaccaac 
      caggaccca gtggttaaa atctgctgt cctgatgag 
      ggaaaatac agcgacatt ttcaccagt aatgacgtg 
      cacgaacgg ttctcaaac ttcttccca gaccctggc 
      ctaggcgaa tgtgggaag caaaactct gacaataaa 
      attgtcgga ggcactgaa acctaccta gatgagttt 
      ccttggctg gcgttactt aagtacgtt aacggaaat 
      aaaattcgt tattcgtgt gcgggaagc ttgattaac 
      gaacagtat gttttaaca gcagcacac tgtgttgac 
      ccgcaaatc ataaagcag aaagagctt ggaaaactc 
      cagaatgtg attttgggc gaatacgac acaagaaac 
      gaaactgac tgcatctac caaaaattc ggcactgac 
      tgtgccgat cctccccag gttttctca gctgtcgat 
      tacattatt catcccaat tacgactcg tcgtcaatg 
      ataaacgac attgccatc atccgtttg aaccgcaag 
      gctaaatac tcagattat gtccaacca atttgtcta 
      ccacccaaa aatttgaaa ctgcaaggc aacgaatct 
      tttacgata agtggctgg ggtcgtacg gaatcagaa 
      gaaagaagt cctgttaaa agaaaagca acagtgcgt 
      tacgccgat aaaaaacgc tgtgatgcc aataacgga 
      cgaagggga attagcgac cgtcagatt tgtgtgggt 
      caaggggat ggggttgat agctgttac ggcgattca 
      gggggtcct ttaatgtta gaaacacaa actaaaaac 
      aattcttat gccactttc gtcgtcggt ttggtctcg 
      tatggctac gggcggtta tgtggcaac tttccgggt 
      gtttacacc tatttgccc gcctatcta gattggata 
      gagcagcag atgagatga
    mRNA sequence
    • >TC032161 RA
      agattgttc ttaatcata aacagaaaa cattacatg 
      tgtgttgca aataaatta gtgagtgtg tagtaaatg 
      agttactgt tgggaaatt gtggtttaa ttgtagtaa 
      taattaatt cattagcag aaattctct tctgacgtc 
      acttcacgt ggagtgtat aaacttcac actggtgat 
      ggccgaacg cttgtaaat tcccaacat tcaaaacaa 
      aatgatcgc aggaaaagt tttcagtgt tcgtttatt 
      gtttgtaag tgttttgtg gttattaca aacaacaaa 
      ttacgtttc aaccaccaa aatagaatg tattcctct 
      gaaactttg cccaatggc catgaatct gatcaaaac 
      caagcctta cgccccgga aacgatcga attcctccg 
      gtactctca ctgcgggtt tgatggtca cgatgccaa 
      agtctggtg cacggtgtt tttatattg caaaacgcc 
      cgattcccg gaatggaat ttgtaaaaa catcaaaga 
      gtgcgattc tttcatgaa gtatgtgga gaacgtgga 
      cacacaaga cccagtcgt gcgaaaata cctcaagga 
      gtaccagtg tagcaccaa ccaggaccc agtggttaa 
      aatctgctg tcctgatga gggaaaata cagcgacat 
      tttcaccag taatgacgt gcacgaacg gttctcaaa 
      cttcttccc agaccctgg cctaggcga atgtgggaa 
      gcaaaactc tgacaataa aattgtcgg aggcactga 
      aacctacct agatgagtt tccttggct ggcgttact 
      taagtacgt taacggaaa taaaattcg ttattcgtg 
      tgcgggaag cttgattaa cgaacagta tgttttaac 
      agcagcaca ctgtgttga cccgcaaat cataaagca 
      gaaagagct tggaaaact ccagaatgt gattttggg 
      cgaatacga cacaagaaa cgaaactga ctgcatcta 
      ccaaaaatt cggcactga ctgtgccga tcctcccca 
      ggttttctc agctgtcga ttacattat tcatcccaa 
      ttacgactc gtcgtcaat gataaacga cattgccat 
      catccgttt gaaccgcaa ggctaaata ctcagatta 
      tgtccaacc aatttgtct accacccaa aaatttgaa 
      actgcaagg caacgaatc ttttacgat aagtggctg 
      gggtcgtac ggaatcaga agaaagaag tcctgttaa 
      aagaaaagc aacagtgcg ttacgccga taaaaaacg 
      ctgtgatgc caataacgg acgaagggg aattagcga 
      ccgtcagat ttgtgtggg tcaagggga tggggttga 
      tagctgtta cggcgattc agggggtcc tttaatgtt 
      agaaacaca aactaaaaa caattctta tgccacttt 
      cgtcgtcgg tttggtctc gtatggcta cgggcggtt 
      atgtggcaa ctttccggg tgtttacac ctatttgcc 
      cgcctatct agattggat agagcagca gatgagatg 
      aagtttgcc aaaactaag actgaagtc ccgcaaaag 
      taacaaacg ccaaaagaa aattaaagt tactgactg 
      aaattatta cctcgatgt gtattattt aacttaata 
      cttcctcat ttttgttag aacttaaga ttaagatta 
      tgatttttt tgaggtgta tttaaaaac aaaattgta 
      aataaattg tgtctatgc ta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY