Status
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Gene information
General information
TC013804 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_007420.3: 3791386..3796339
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
    TC013804
    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
    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
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    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_05503

    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: 50.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC013804 RA
      MVFNFRVFK KQAPNGKLT MYLGKRDFV DHISGVEPI 
      DGVVVVDND YKDRKIFGQ IICSFRYGR EEDEVMGLN 
      FQKDLHLAT ELVYPPPSD KQNFTKLQD RLMRKLGPN 
      CFPFTFTLP PNAPASVTL QPGPEDEGQ PCGVHYYVK 
      LFVGENETD RSHKRSTVS MAIRKVQYA PSKQGRQPC 
      TVVRKDFML SPGELELEV TLDKQLYHH GEKIATNIC 
      IRNNSNKIV KKIKVMVQQ GVDVVLFQN GQYRSTVAS 
      IETQEGCPI QPGSSLQKV VYLVPLLST NKDRRGIAL 
      DGQLKRQET NLASTTLLA SPDQRDAFG IIVSYAVKV 
      KLYLGALGG ELAAELPFI LMHPKPDNR GKVIHADSQ 
      ADVEMFRQD TMDNDIDE
    CDS sequence
    • >TC013804 RA
      atggttttc aacttccgc gtgttcaaa aaacaagct 
      ccaaatggc aaactcacg atgtacttg ggcaagcgc 
      gactttgtc gaccacatc tcaggggtt gaacccatc 
      gacggagtc gtggtggtg gacaacgac tacaaagac 
      cgaaaaatc ttcggccaa atcatttgc agcttccgg 
      tacggacga gaagaggac gaagtcatg ggtttgaac 
      ttccaaaaa gaccttcac ttggccacc gaacttgtg 
      tacccacct ccgagcgac aagcaaaat tttaccaaa 
      ctccaggac cggctcatg agaaaactc ggcccgaat 
      tgctttcct ttcactttc acgcttccg cccaatgcg 
      cccgcatct gtcaccctc cagccgggg cctgaagat 
      gagggccaa ccctgcgga gtgcattat tacgtcaag 
      ctttttgtt ggagagaac gaaaccgat cggtcccac 
      aaaaggagc accgtttcg atggctatc aggaaagtg 
      caatacgcc ccttcgaaa caagggcgc caaccttgc 
      accgtagtc cgaaaggac ttcatgctg agtcctggc 
      gaactggag ctggaagtg accctagac aagcagttg 
      taccaccat ggcgaaaaa atcgcaacg aatatttgc 
      attcggaac aacagcaat aaaattgtg aaaaagatt 
      aaagtcatg gtacaacaa ggagtggac gtggtactg 
      ttccaaaac ggccagtac agatccact gtggctagc 
      atcgaaacc caggagggt tgccctatt cagcctggc 
      tcaagtctc caaaaagtc gtctatttg gtgccccta 
      ctctctacc aataaggac agacgcggg atagcactt 
      gacggccaa ttgaaacgc caggagacg aatttagcc 
      tctacgact ttgttggcg tcacctgat cagagggac 
      gccttcggg atcattgtc tcgtatgct gttaaggtt 
      aagctgtat ttgggggct ttagggggc gaactggcc 
      gccgaattg cctttcatt ttgatgcat ccgaagccg 
      gataacagg ggcaaagtc attcatgcc gacagtcag 
      gcggatgtg gaaatgttc agacaggac accatggat 
      aatgacatt gacgaataa
    mRNA sequence
    • >TC013804 RA
      aaacgctag catggtttt caacttccg cgtgttcaa 
      aaaacaagc tccaaatgg caaactcac gatgtactt 
      gggcaagcg cgactttgt cgaccacat ctcaggggt 
      tgaacccat cgacggagt cgtggtggt ggacaacga 
      ctacaaaga ccgaaaaat cttcggcca aatcatttg 
      cagcttccg gtacggacg agaagagga cgaagtcat 
      gggtttgaa cttccaaaa agaccttca cttggccac 
      cgaacttgt gtacccacc tccgagcga caagcaaaa 
      ttttaccaa actccagga ccggctcat gagaaaact 
      cggcccgaa ttgctttcc tttcacttt cacgcttcc 
      gcccaatgc gcccgcatc tgtcaccct ccagccggg 
      gcctgaaga tgagggcca accctgcgg agtgcatta 
      ttacgtcaa gctttttgt tggagagaa cgaaaccga 
      tcggtccca caaaaggag caccgtttc gatggctat 
      caggaaagt gcaatacgc cccttcgaa acaagggcg 
      ccaaccttg caccgtagt ccgaaagga cttcatgct 
      gagtcctgg cgaactgga gctggaagt gaccctaga 
      caagcagtt gtaccacca tggcgaaaa aatcgcaac 
      gaatatttg cattcggaa caacagcaa taaaattgt 
      gaaaaagat taaagtcat ggtacaaca aggagtgga 
      cgtggtact gttccaaaa cggccagta cagatccac 
      tgtggctag catcgaaac ccaggaggg ttgccctat 
      tcagcctgg ctcaagtct ccaaaaagt cgtctattt 
      ggtgcccct actctctac caataagga cagacgcgg 
      gatagcact tgacggcca attgaaacg ccaggagac 
      gaatttagc ctctacgac tttgttggc gtcacctga 
      tcagaggga cgccttcgg gatcattgt ctcgtatgc 
      tgttaaggt taagctgta tttgggggc tttaggggg 
      cgaactggc cgccgaatt gcctttcat tttgatgca 
      tccgaagcc ggataacag gggcaaagt cattcatgc 
      cgacagtca ggcggatgt ggaaatgtt cagacagga 
      caccatgga taatgacat tgacgaata aaatcattg 
      aacctatat gatacaaga taagtctgc tgaaagtac 
      tttttccta ttaatttgt caataaaaa attgcacag 
      aat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY