Status
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Gene information
General information
TC000920 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: 8472366..8482149
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
    TC000920
    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
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    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_03103

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    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%
    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
    • >TC000920 RA
      MSSFLMNPG TALPTYQQP QHISGVVVD PKFPPSEEY 
      NQNSYIPPG GDFFGNHHI QQQQLQYGY HNHQNYNSN 
      VLSNGYGYG NYYHPQLHS HHGPPIHHQ IRPPILHDT 
      QPMCESLNT QPPVTSSSN ILQNLADIT PNVTPNCDV 
      KSSVCSPGS GHQDSRTSP SGQHLQELG LRLEDANSD 
      EQDDGDDGQ GSSTNNDED DDDEETGDR QIYPWMRKV 
      HVAGASNGT FAPGMEPKR QRTAYTRHQ ILELEKEFH 
      YNRYLTRRR RIEIAHTLV LSERQIKIW FQNRRMKWK 
      KDNKLPNTK NVRRKTNPA GVTTTTKGK VRAKTQNAT 
      PANNNDKRK SRGEVDGLG ENMMDMSLT RHQISSMGH 
      SHAHPMHHD MLPETMHMG MGPSLTPLA SPGCGPGQG 
      GLQPTIKSD YGLTAL
    CDS sequence
    • >TC000920 RA
      atgagctcg tttttgatg aacccgggg acggcgtta 
      ccgacgtat cagcagccc cagcatatt agcggcgtc 
      gtcgtcgac cccaagttt cccccaagt gaggagtac 
      aaccagaac agctatatc ccacccggg ggagacttc 
      ttcggcaac caccacatc cagcagcag cagctgcag 
      tacggatac cacaaccac cagaactac aactcgaat 
      gtgctgagc aacggatat gggtatggt aactactac 
      cacccgcag ctgcactcc catcatggg ccgcccata 
      caccaccag atccggccg ccgattttg cacgacacc 
      cagcccatg tgcgaaagt ttaaataca caaccccca 
      gttacaagt tcctcgaac attcttcaa aatttagca 
      gacattacg cccaatgtt accccaaat tgtgatgtg 
      aaatctagt gtgtgtagc ccgggctcg ggccatcag 
      gactctaga acttcgccc tccggacaa cacctccag 
      gagttaggt ttgcgactc gaagatgcc aattccgac 
      gagcaggac gacggagac gacggccaa gggagttcg 
      acgaacaac gacgaagac gacgacgat gaggagacc 
      ggagacaga caaatatac ccctggatg cgcaaagtg 
      cacgttgct ggagcttca aacggtacc ttcgctcct 
      ggcatggaa ccgaagcgc cagcgcacg gcctacacc 
      cgccaccag atcctcgaa ctcgaaaaa gagttccac 
      tacaaccgc tacttgacc cgtcgaaga cgcatcgaa 
      atcgcccac acattagtc ctgtccgag cgacaaatc 
      aaaatctgg ttccagaac cgacggatg aagtggaag 
      aaggataac aaattaccc aacacgaag aatgtgagg 
      cgaaaaacg aatcccgcc ggagtgacg acgaccacc 
      aagggcaaa gttcgcgca aagacacag aacgccact 
      ccggccaat aacaatgac aaacgcaag agtcggggc 
      gaagtcgac ggcttgggg gagaacatg atggacatg 
      tcgctgacg cggcaccag atctcctcc atgggccac 
      tcgcacgcc caccccatg caccacgac atgctcccc 
      gagaccatg cacatgggc atggggccc tcgctcacc 
      ccgctggcc tcccccggc tgcgggccg gggcagggc 
      ggcctccag cccaccatc aagtcggat tacggactc 
      acggccttg taa
    mRNA sequence
    • >TC000920 RA
      agagcgaaa ggtcgtgcc ttccaattc tagccccaa 
      attttaaca aaaactccc gtgactcta ttcttgcac 
      caagtgctg gacttggaa ataatgtag ttattagtg 
      accggattt ttagtgaaa ttgtagtga cccaggttt 
      ggagccgac cgcgtgtat gtgagcccc cacccctcg 
      cccgagtag cgtcatcca tcatggtcg gtgacgtca 
      ggccctgct attggtaga gcggcgtca cgtggcgag 
      ttaattgag ggcggagcc agcgcgagt ggtaaagta 
      ggggaagag aaaaaagag tcactagtg cgtagtaaa 
      ccccccacc gtataatcc acggcacgc tattccgag 
      agcttttat cgagaagtg aggaaaaat taatgatga 
      gctcgtttt tgatgaacc cggggacgg cgttaccga 
      cgtatcagc agccccagc atattagcg gcgtcgtcg 
      tcgacccca agtttcccc caagtgagg agtacaacc 
      agaacagct atatcccac ccgggggag acttcttcg 
      gcaaccacc acatccagc agcagcagc tgcagtacg 
      gataccaca accaccaga actacaact cgaatgtgc 
      tgagcaacg gatatgggt atggtaact actaccacc 
      cgcagctgc actcccatc atgggccgc ccatacacc 
      accagatcc ggccgccga ttttgcacg acacccagc 
      ccatgtgcg aaagtttaa atacacaac ccccagtta 
      caagttcct cgaacattc ttcaaaatt tagcagaca 
      ttacgccca atgttaccc caaattgtg atgtgaaat 
      ctagtgtgt gtagcccgg gctcgggcc atcaggact 
      ctagaactt cgccctccg gacaacacc tccaggagt 
      taggtttgc gactcgaag atgccaatt ccgacgagc 
      aggacgacg gagacgacg gccaaggga gttcgacga 
      acaacgacg aagacgacg acgatgagg agaccggag 
      acagacaaa tatacccct ggatgcgca aagtgcacg 
      ttgctggag cttcaaacg gtaccttcg ctcctggca 
      tggaaccga agcgccagc gcacggcct acacccgcc 
      accagatcc tcgaactcg aaaaagagt tccactaca 
      accgctact tgacccgtc gaagacgca tcgaaatcg 
      cccacacat tagtcctgt ccgagcgac aaatcaaaa 
      tctggttcc agaaccgac ggatgaagt ggaagaagg 
      ataacaaat tacccaaca cgaagaatg tgaggcgaa 
      aaacgaatc ccgccggag tgacgacga ccaccaagg 
      gcaaagttc gcgcaaaga cacagaacg ccactccgg 
      ccaataaca atgacaaac gcaagagtc ggggcgaag 
      tcgacggct tgggggaga acatgatgg acatgtcgc 
      tgacgcggc accagatct cctccatgg gccactcgc 
      acgcccacc ccatgcacc acgacatgc tccccgaga 
      ccatgcaca tgggcatgg ggccctcgc tcaccccgc 
      tggcctccc ccggctgcg ggccggggc agggcggcc 
      tccagccca ccatcaagt cggattacg gactcacgg 
      ccttgtaat ccgattttt ggcgaaatt tctttcagt 
      acaattaag ttaatgtga atcgaaacg ccgacaata 
      taagtgtga actgtgact ggacaagtt tcaggcgat 
      tttatggct ttcatttga ctcgagtca gcgtccaaa 
      atactcatt gttgtaagt tttttatgt ctttattga 
      gttttgtac tttgtgcca tttaatata aggattgtt 
      tcgttgtta ccgtattta ataaacttg aaatacatg 
      tgacttaag cttgtttat ggcactttt ttacagcac 
      gtgttgctc agggtaaag agtggactc gtatttctt 
      ttagtcgta cgttataat catttctct cattttatt 
      gtgcatgta tttttgagg ttattaaac cagtgtgat 
      cctattaaa gtataaaag ttcggtagg taaaaatag 
      cttgtaaat actattatt tagaaataa aatgtatac 
      ttctat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY