Status
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Gene information
General information
TC001523 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_007425.3: 3053099..3054807
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
    TC001523
    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_06747

    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: 2 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (9 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): 50% - 80%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 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
    • >TC001523 RA
      MSQVSYETL SVTVPKEFV YHVELSRPD KINAMNNTM 
      WMEIKKCFE TLNTDENCR AIVLSAAGK IFTCGLDFQ 
      QVMQVGPQL AQMSDIARK AKILYQFVT NYQNSVSSL 
      ELCRKPVLA AVHSACIGG GFNLITAAD MRYCTKDAF 
      FQLKEVDIG MAADVGALQ RLPKVVGSD SLVRELAYT 
      ARKMPASEA LSSGLVSKV FDDKDGMIE GVVGIAAEI 
      ASKSPVAVQ GTKFNLVYS RDHTVQEGL DHIAMWNQT 
      MMQSEDFTT ATVAQATKQ KNVVFEKL
    CDS sequence
    • >TC001523 RA
      atgtctcaa gtttcttac gaaacttta tcggtaaca 
      gtgcctaaa gaatttgta tatcatgtc gaactcagt 
      cgtcctgac aaaattaat gcgatgaat aacactatg 
      tggatggaa atcaagaaa tgcttcgaa accttaaac 
      actgatgaa aattgcaga gccattgtc ttatcagca 
      gcggggaaa attttcact tgtggtttg gacttccag 
      caagtgatg caagttggg ccccaactg gctcagatg 
      agtgacata gctcgcaaa gctaaaatt ttgtatcag 
      tttgttaca aattaccag aactccgtt tcatcactt 
      gaattatgc agaaagcct gttttggct gctgttcat 
      tctgcttgc attggggga ggttttaat cttatcaca 
      gcagctgat atgagatac tgtactaaa gatgcattt 
      ttccaactc aaagaggtc gatattggg atggctgcc 
      gacgtgggg gcccttcaa agactgcct aaagtggtg 
      gggtccgat agtttagta agagagttg gcttacact 
      gcccgaaaa atgccagca agtgaagcc ctaagctcg 
      gggttggtc tcgaaagtg tttgatgat aaagatgga 
      atgattgag ggtgttgtt gggatagcg gcagaaatt 
      gcctcaaag agccccgtt gcagtacaa ggtacaaaa 
      tttaatttg gtttattca cgggatcac actgtacaa 
      gagggattg gatcatatt gccatgtgg aatcaaaca 
      atgatgcaa agtgaagat tttacgact gccactgta 
      gctcaagca acaaaacag aaaaacgtt gtttttgaa 
      aaattataa
    mRNA sequence
    • >TC001523 RA
      tgcctggaa acatgcgca aacgtggac cattaattt 
      agaatttct cttctttat ctttcttgc atagttttg 
      tattattta tcgcacctt tcaggctct gaatagact 
      ttggactca tttacgttc atatcaacg actccctcc 
      atcatttgg ctcttcatg aaagcttta taaacaaac 
      caagcgctt tttttattt aatttataa gtgtctatg 
      aatactgcg gttacagcg gtgtattgt ttattttta 
      taatttcgt taattagat atttttgat cttttttca 
      ctaagtcta tttttatat tcaccataa aatgttttc 
      tttaatctc aaaagttgc cgtcagtgc ctctttatc 
      acatattag taacagcgc taatttcat aaataatgc 
      ggcaaaaat gtctcaagt ttcttacga aactttatc 
      ggtaacagt gcctaaaga atttgtata tcatgtcga 
      actcagtcg tcctgacaa aattaatgc gatgaataa 
      cactatgtg gatggaaat caagaaatg cttcgaaac 
      cttaaacac tgatgaaaa ttgcagagc cattgtctt 
      atcagcagc ggggaaaat tttcacttg tggtttgga 
      cttccagca agtgatgca agttgggcc ccaactggc 
      tcagatgag tgacatagc tcgcaaagc taaaatttt 
      gtatcagtt tgttacaaa ttaccagaa ctccgtttc 
      atcacttga attatgcag aaagcctgt tttggctgc 
      tgttcattc tgcttgcat tgggggagg ttttaatct 
      tatcacagc agctgatat gagatactg tactaaaga 
      tgcattttt ccaactcaa agaggtcga tattgggat 
      ggctgccga cgtgggggc ccttcaaag actgcctaa 
      agtggtggg gtccgatag tttagtaag agagttggc 
      ttacactgc ccgaaaaat gccagcaag tgaagccct 
      aagctcggg gttggtctc gaaagtgtt tgatgataa 
      agatggaat gattgaggg tgttgttgg gatagcggc 
      agaaattgc ctcaaagag ccccgttgc agtacaagg 
      tacaaaatt taatttggt ttattcacg ggatcacac 
      tgtacaaga gggattgga tcatattgc catgtggaa 
      tcaaacaat gatgcaaag tgaagattt tacgactgc 
      cactgtagc tcaagcaac aaaacagaa aaacgttgt 
      ttttgaaaa attataagc aaacaaaaa taaaaattt 
      cttatctca
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY