Status
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Gene information
General information
TC000334 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: 12980412..12983007
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
    TC000334
    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
    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_00075

    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: 10.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    remarks: animals lost,
    Adult morphology
    remarks: animals lost,
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC000334 RA
      MEFRNYGTY ESVLRGKEE HVPLLPRKI SRQYKGTRL 
      MGMCRTSFF FSIYLIIYV MFLFSGAAV FSVLETPPE 
      RAARARLDG VVLKFRSEN PTVTDQALE DLITEVVKA 
      SNRGVSASR NASGEPNWS FGQSLFFSS TVVTTIGYG 
      HVTPLSRTG KIFCMLYAM VGIPLTLVL LSALVERLL 
      VPTIWLLQW LNSRLGHLY QPFNIRILH LFIIVLILI 
      VLFLLAPAA VFASIEPEW DYLDSLYYC FISLTTIGL 
      GDYIPGDSP DQPYRPLYK IATTGYLFM GITFMMLTL 
      AVFYDIPQL NLGLLFTSH EETNMEKVR LAGAGMGLQ 
      YGGAAYSPG DDNTHRQVV RVRSRRDDS PSPDEAPQK 
      DFQLP
    CDS sequence
    • >TC000334 RA
      atggagttc aggaattac ggaacttat gaatcagta 
      ttacggggc aaagaggaa cacgttcct ctcctcccc 
      cgcaaaatc tccagacag tataaaggg actagatta 
      atgggaatg tgcagaact tcgtttttc ttttccatt 
      tatttgatc atttatgtg atgttcttg ttcagcggt 
      gcggcggtg ttcagtgtg ctcgagacg cccccagag 
      agggcggcc agggccagg cttgacggg gtcgtgctc 
      aaatttcgc agcgaaaat ccgacagtt acagatcaa 
      gctcttgaa gacttaata accgaagta gtgaaagct 
      agcaataga ggtgtctcg gcgtcgaga aatgcgtca 
      ggggagcca aactggagt tttggacaa tcattattt 
      ttttctagt actgtagtg acaacaata gggtatggt 
      cacgtgaca ccattaagc cgaaccggc aaaatcttc 
      tgtatgctg tacgccatg gtggggatt cccctaacc 
      ctcgtcctc ctgtccgct ttggtggaa cgcctgtta 
      gtgcccacg atttggttg ctccaatgg ctaaattcc 
      cgactcgga cacttgtac caacctttc aatattcgt 
      attttgcac ctgtttatc atcgtgtta atactcatc 
      gtgctgttc ctgctagcg cctgccgcc gtcttcgcc 
      agcatagaa ccagagtgg gactattta gactcgctc 
      tattactgt ttcatttca ctcacaacg attggattg 
      ggtgactac atcccgggt gattccccc gatcagccg 
      taccggccg ttgtacaaa atcgcgaca acaggttac 
      cttttcatg gggatcacc ttcatgatg ctaaccttg 
      gcagttttc tacgacata ccgcagctg aatttgggg 
      ctgttgttt acgagccac gaggagacc aacatggag 
      aaggtcaga ctggccggg gccggcatg gggctgcag 
      tatgggggc gccgcctac agtcccggc gatgataac 
      actcaccga caggtcgtc agagtgagg tctcggcgc 
      gacgacagc cccagtccg gacgaagcg ccccaaaaa 
      gattttcaa cttccgtag
    mRNA sequence
    • >TC000334 RA
      taatacttg gcctcgctt ggtgcagaa tcatcgagt 
      tcagtgcct gtttttccc aaattttcg caatggaag 
      accggactt ttcgtgtgt gcagcgcga actttctgt 
      ttgtgcgcc aattcagtg atagtttat agcatcagg 
      tgaaatgga gttcaggaa ttacggaac ttatgaatc 
      agtattacg gggcaaaga ggaacacgt tcctctcct 
      cccccgcaa aatctccag acagtataa agggactag 
      attaatggg aatgtgcag aacttcgtt tttcttttc 
      catttattt gatcattta tgtgatgtt cttgttcag 
      cggtgcggc ggtgttcag tgtgctcga gacgccccc 
      agagagggc ggccagggc caggcttga cggggtcgt 
      gctcaaatt tcgcagcga aaatccgac agttacaga 
      tcaagctct tgaagactt aataaccga agtagtgaa 
      agctagcaa tagaggtgt ctcggcgtc gagaaatgc 
      gtcagggga gccaaactg gagttttgg acaatcatt 
      atttttttc tagtactgt agtgacaac aatagggta 
      tggtcacgt gacaccatt aagccgaac cggcaaaat 
      cttctgtat gctgtacgc catggtggg gattcccct 
      aaccctcgt cctcctgtc cgctttggt ggaacgcct 
      gttagtgcc cacgatttg gttgctcca atggctaaa 
      ttcccgact cggacactt gtaccaacc tttcaatat 
      tcgtatttt gcacctgtt tatcatcgt gttaatact 
      catcgtgct gttcctgct agcgcctgc cgccgtctt 
      cgccagcat agaaccaga gtgggacta tttagactc 
      gctctatta ctgtttcat ttcactcac aacgattgg 
      attgggtga ctacatccc gggtgattc ccccgatca 
      gccgtaccg gccgttgta caaaatcgc gacaacagg 
      ttacctttt catggggat caccttcat gatgctaac 
      cttggcagt tttctacga cataccgca gctgaattt 
      ggggctgtt gtttacgag ccacgagga gaccaacat 
      ggagaaggt cagactggc cggggccgg catggggct 
      gcagtatgg gggcgccgc ctacagtcc cggcgatga 
      taacactca ccgacaggt cgtcagagt gaggtctcg 
      gcgcgacga cagccccag tccggacga agcgcccca 
      aaaagattt tcaacttcc gtagtagga gaaataagt 
      gttacaaca ccaatactc agacgccta taatccacg 
      caatttatg atgtagtac tgcaattgc acacgtttt 
      cttatgatc ggtacctaa ctgtaattt atcatttgc 
      caaataact ttaataaaa agagtattt ttacgagat 
      attttattt ttacaaaag ttatattta gaaaaaagc 
      aaatgtata caatcaaca atgtcttat gtattaatg 
      tgtagggaa gatctgtct caattcttg tggaccaat 
      aaagacgaa gttctggca ttttgtggt ttcatttcc 
      ggaagaaaa tgtttttgc tatt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY