Status
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Gene information
General information
TC001143 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: 11531252..11538312
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
    TC001143
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_03145

    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: < 20
    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
    • >TC001143 RA
      MELPRIASQ TSICPPSIQ LLTEYPKPR PPVSKMLLN 
      SSKQPAEPQ FAVLPCAPA YQPSRKREE ARALQNLRK 
      RLQAVRVLQ ANKPEPIEA ASCANNNLS QEDLDNRAY 
      LLQKILTNR PVSMVLDVS DLTTAWKDS DFITDCLCW 
      HNVYRQRHG SPALSMSSE LCYLAQTWA NHLAHTNRF 
      YYRNDKDIG QNLFCRPSN VLVNDVTGQ EVATYWYRA 
      VRQYDFRKE PDILHANVN AGHFTQLVW ASSRYFGIG 
      KARSRSGKI VVVAHYAPA GNISGAYLE NVLPPSAEY 
      FTLPPMPPN RYLVSSEGS TTDSARSIS EST
    CDS sequence
    • >TC001143 RA
      atggagctg cctcgaata gcttctcaa acttcgatc 
      tgccctccc agcatccaa ctgttgacg gaatacccc 
      aaacctcga cctcccgtc agcaaaatg ctgctcaat 
      tcttccaaa cagccagct gaaccgcag tttgctgta 
      cttccttgt gcaccagct tatcagcct agccgcaag 
      cgcgaggaa gcacgtgct ctgcaaaat ctgaggaaa 
      agactgcaa gctgtacga gttctccaa gctaataaa 
      ccggaaccg attgaagcg gcgtcctgt gccaataat 
      aatcttagc caagaggat ttagataat agagcttat 
      cttctccaa aagattttg accaataga ccagtgagt 
      atggttttg gatgtgtct gacctgacg acggcctgg 
      aaagatagc gatttcata acggattgc ctttgctgg 
      cataatgtc tacagacaa aggcacgga tctccagct 
      ttatccatg tcatcggag ctgtgctac cttgcacag 
      acttgggcc aaccacctc gctcacacg aaccgcttt 
      tactaccgc aacgacaaa gacatcggc caaaattta 
      ttctgtcgt ccttcgaac gtcttagtc aacgacgtc 
      acaggccaa gaagtcgca acttattgg tatcgtgcc 
      gtccgtcag tacgatttc cgaaaagag ccggacatt 
      ctgcatgca aatgtcaat gcaggccat ttcacgcag 
      ttggtttgg gcatcctcg cgctatttt ggcataggc 
      aaagctcgc tcgaggtct ggcaagatc gtcgttgtt 
      gctcattac gctcctgcg ggaaatatt tcaggagct 
      tacttagaa aacgtgctt cctccgtca gccgaatat 
      ttcacgttg cctccgatg cccccgaat cgatatctg 
      gtgtctagc gaaggctcc accactgac tcggccagg 
      agcatctcg gaaagcact tga
    mRNA sequence
    • >TC001143 RA
      tcgcgacgg cgaacgtat cgacctgac gcatgcact 
      gcgtcagta gtgtgtctt cgcctcttg caagtccta 
      gcagcggga tgctgtgct ctcagcagc atggagctg 
      cctcgaata gcttctcaa acttcgatc tgccctccc 
      agcatccaa ctgttgacg gaatacccc aaacctcga 
      cctcccgtc agcaaaatg ctgctcaat tcttccaaa 
      cagccagct gaaccgcag tttgctgta cttccttgt 
      gcaccagct tatcagcct agccgcaag cgcgaggaa 
      gcacgtgct ctgcaaaat ctgaggaaa agactgcaa 
      gctgtacga gttctccaa gctaataaa ccggaaccg 
      attgaagcg gcgtcctgt gccaataat aatcttagc 
      caagaggat ttagataat agagcttat cttctccaa 
      aagattttg accaataga ccagtgagt atggttttg 
      gatgtgtct gacctgacg acggcctgg aaagatagc 
      gatttcata acggattgc ctttgctgg cataatgtc 
      tacagacaa aggcacgga tctccagct ttatccatg 
      tcatcggag ctgtgctac cttgcacag acttgggcc 
      aaccacctc gctcacacg aaccgcttt tactaccgc 
      aacgacaaa gacatcggc caaaattta ttctgtcgt 
      ccttcgaac gtcttagtc aacgacgtc acaggccaa 
      gaagtcgca acttattgg tatcgtgcc gtccgtcag 
      tacgatttc cgaaaagag ccggacatt ctgcatgca 
      aatgtcaat gcaggccat ttcacgcag ttggtttgg 
      gcatcctcg cgctatttt ggcataggc aaagctcgc 
      tcgaggtct ggcaagatc gtcgttgtt gctcattac 
      gctcctgcg ggaaatatt tcaggagct tacttagaa 
      aacgtgctt cctccgtca gccgaatat ttcacgttg 
      cctccgatg cccccgaat cgatatctg gtgtctagc 
      gaaggctcc accactgac tcggccagg agcatctcg 
      gaaagcact tgattttag agccacatt ttttccgag 
      gcaagtaat gggaaaata gagcgctcc gcaattgga 
      atagtgtgt cacttatta ctattccaa caccagttg 
      agttactct aatttcaga ttacacaat ttgatcacg 
      agtgcctat tttcgtaat tgcattgcg taaagggta 
      gttgtagcc aacgtaccg tgaaactaa gccacgacg 
      caaaaaacg tattaattc gaatacaca caagtagac 
      tat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY