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Gene information
General information
TC002130 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: 19838947..19843550
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
    TC002130
    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_00331

    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: 1 (9 dpi)
    Days post injection


    Fertility
    egg chamber number decreased - Number of animals showing the phenotype: 1

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 20 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - 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: 50.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    pupation delayed (still larva) - Number of animals showing the phenotype: 5 (11 dpi)
    Days post injection


    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection


    larva lethality late (L7) - Number of animals showing the phenotype: 4 (19 dpi)
    Days post injection


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection


    Pupal morphology
    elytra shortened - Number of animals showing the phenotype: 4

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC002130 RA
      MATLEDKIL GEKLHNYCS SSEESEGDS DSEEQNKKT 
      EPVDATPPE VNKWEGTSS NTGPKGVIK DWQRYKQLE 
      NEKRAEDES EKIALMKKL TLTVQSALD EEREKAALE 
      DPDLAELLN DDFLLNYQK QRMQEMLLQ TNHNIKFGE 
      VIVLKSSGE LLDAIDKEH KSVTIVVHI YEDNVEACR 
      TMNVCLKQL CKTYENVKF CSIVGSRAG MSMRFKTDG 
      VPALLIYKG GQLVGNFIR LSDDLGTDF EPEDIQSFL 
      VEHGMLEDK SCTPLLIQG GTDHSDSD
    CDS sequence
    • >TC002130 RA
      atggcaacg ttagaagac aagattctc ggcgaaaaa 
      ttgcacaat tactgcagc agcagtgag gaaagtgag 
      ggtgattcc gattctgag gaacaaaac aagaaaaca 
      gaacccgtt gatgcgacg ccccctgaa gtcaataaa 
      tgggagggg acgtcctcc aacacgggc cccaaagga 
      gtgatcaag gactggcaa aggtacaaa caactggag 
      aatgaaaaa cgggcggag gacgaaagc gagaaaatc 
      gccctcatg aagaaactg actttgacg gttcaatcg 
      gccttggat gaagagcgg gaaaaagcg gctttggaa 
      gacccagat ttggccgaa ttgttgaat gatgatttc 
      ttgttaaac taccagaag caaaggatg caggaaatg 
      ctgcttcag acaaaccat aacatcaaa tttggtgag 
      gtaatagtt ttaaaaagc agtggtgaa ctcctcgac 
      gcaattgac aaggagcat aaatcggtg actatcgtt 
      gtacacatt tacgaagac aatgtggaa gcctgtcgc 
      acaatgaac gtgtgctta aaacagctt tgcaaaact 
      tacgaaaat gtgaaattc tgttcaatt gttggctca 
      agggctggg atgagtatg cggtttaaa acagacgga 
      gttccggct ttacttatc tataaaggg ggacaactt 
      gtcgggaat tttattcga ttgtcggat gatcttggc 
      actgatttt gagcctgaa gacattcag agtttttta 
      gttgaacat ggaatgctg gaagacaag agttgtact 
      ccgttgctc attcaaggt ggaacggat cacagtgac 
      agtgattga
    mRNA sequence
    • >TC002130 RA
      gctgtcttg gcaccagat gcagctttt ttgggtggc 
      attttgcaa ttttatcac aactaacac aaaattcaa 
      cggtatttc aatgtgcgc caaaaaacg ccgagtttt 
      tgacagacg aaaaaaagc gctgccaac acaccgact 
      agtaaatgt tcaagaaaa cgagcggtt ttttgaaaa 
      attaaactt tttaatgaa tgtagtcaa actaaatac 
      gatttttaa ccgagttcg agtcatcag tcattaatt 
      aaagtaaac ttctttact taactatgg tttttggtc 
      atttttagt gtgactttg acaattgtc acacttgtc 
      aaaatttta gggttagag tttttgttt atttgaggc 
      ctcgttcgt tttcccgtt ccgtttatt tttgagcga 
      acatttgtt gttcctgtc atattgtgc attaaattc 
      gtccttgtg ctattctta aattaggcg aaattactt 
      gatctttca attaacaac gttgatcga aaatggcaa 
      cgttagaag acaagattc tcggcgaaa aattgcaca 
      attactgca gcagcagtg aggaaagtg agggtgatt 
      ccgattctg aggaacaaa acaagaaaa cagaacccg 
      ttgatgcga cgccccctg aagtcaata aatgggagg 
      ggacgtcct ccaacacgg gccccaaag gagtgatca 
      aggactggc aaaggtaca aacaactgg agaatgaaa 
      aacgggcgg aggacgaaa gcgagaaaa tcgccctca 
      tgaagaaac tgactttga cggttcaat cggccttgg 
      atgaagagc gggaaaaag cggctttgg aagacccag 
      atttggccg aattgttga atgatgatt tcttgttaa 
      actaccaga agcaaagga tgcaggaaa tgctgcttc 
      agacaaacc ataacatca aatttggtg aggtaatag 
      ttttaaaaa gcagtggtg aactcctcg acgcaattg 
      acaaggagc ataaatcgg tgactatcg ttgtacaca 
      tttacgaag acaatgtgg aagcctgtc gcacaatga 
      acgtgtgct taaaacagc tttgcaaaa cttacgaaa 
      atgtgaaat tctgttcaa ttgttggct caagggctg 
      ggatgagta tgcggttta aaacagacg gagttccgg 
      ctttactta tctataaag ggggacaac ttgtcggga 
      attttattc gattgtcgg atgatcttg gcactgatt 
      ttgagcctg aagacattc agagttttt tagttgaac 
      atggaatgc tggaagaca agagttgta ctccgttgc 
      tcattcaag gtggaacgg atcacagtg acagtgatt 
      gagtattag tgcaagtaa agtattggt gctaagacc 
      ttaaatgta ttgctttat tggtttccg gaacgattt 
      aacgtaacc taacaccaa acaaatcag cgattaaat 
      ttatctaag gctaaatcg ttccagaaa ccgttatgt 
      tatttccag gtgttttct aatctatta aattttgtc 
      tttgatctc atgagaggc tattacgtt gtagaaatg 
      cattgaatg catttttca tctactttt tattaaatt 
      tgtccttga ttttgtcat attaccaca atactaata 
      ataataaag ttataaacc aatt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY