Status
Please wait ...
Gene information
General information
TC016314 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: 983942..992524
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
    TC016314
    Gene ontology

    GO terms for Tribolium

    • {{ goTerm.term }}
      ({{ goTerm.evidence }}){{ goTerm.evidenceTooltip }}
      {{goTerm.showAll ? '[-]' : '[+]'}}
      Status: {{ goTerm.status }}
      Evidence: {{ goTerm.evidence }} ({{ goTerm.evidenceTooltip }})
      Reference: {{ goTerm.referenceText }}
      Quotation: {{ goTerm.quotation }}
      Submitter: {{ goTerm.name }}

    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 *
    {{ blurIdResult }}
    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
    {{ blurEvidenceResult }}
    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 *
    {{ blurReferenceResult }}
    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
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
      {{ unavailableText }}

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_09043

    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: 0.0% (includes death as pupa, adult)

    Adult morphology
    prothoracic odoriferous glands colour darker - Number of animals showing the phenotype: 4 (13 dpi)
    Days post injection



    abdominal odoriferous glands colour darker - Number of animals showing the phenotype: 5 (13 dpi)
    Days post injection



    abdominal odoriferous glands content darker - Number of animals showing the phenotype: 3 (13 dpi)
    Days post injection



    abdominal odoriferous glands colour not present - Number of animals showing the phenotype: 5 (13 dpi)
    Days post injection



    odoriferous glands - Number of animals showing the phenotype: 6 (13 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
    • >TC016314 RA
      MYLILLYLT TVLSISLIY ASDCGCHLN RNSQCSNEE 
      PHNKYSKTF NEGGDSDTK TCTSFDKSD MVLIEAATF 
      EMGTDKPVF ESDHEGPAR NVSVDSFYL DKFEVSNGK 
      FSEFVLKTG YKTEAEEFG DSFIFEMLV PESEREKYK 
      DFRAVQAPW WIKMKGVTW KHPEGEGST INDRLDHPV 
      IHVSWTDAK KYCEFVGKR LPTEAEWEM ACRAGLRQK 
      LYPWGNKLT PKGEHWANI WQGDFPLTN TAEDGYLST 
      APVDSFPAN KFGLHHMAG NVWEWTQDN WLNDPDAKV 
      KKGGSYLCH ESYCWRYRC AARSFNTKD SSAGNLGFR 
      CAGDVK
    CDS sequence
    • >TC016314 RA
      atgtactta attctttta tacttaact actgtactt 
      agtatttct ctcatttac gcctccgat tgtggctgt 
      cacctcaac agaaactct cagtgctca aacgaagaa 
      cctcacaac aaatactca aaaactttc aatgaagga 
      ggcgacagc gacacaaaa acatgtacg agttttgat 
      aaaagtgac atggtttta atcgaagct gcaactttc 
      gaaatggga actgataaa cctgtcttt gagagtgac 
      catgagggg cctgccaga aacgtctcc gttgattcc 
      ttttacttg gacaagttt gaagtttca aacggaaag 
      ttcagcgag tttgtgctt aaaacaggg tacaaaacg 
      gaggccgag gagtttggc gatagcttt atatttgaa 
      atgttagtt cctgaaagt gagagggaa aaatacaag 
      gactttagg gctgttcaa gccccatgg tggatcaaa 
      atgaaaggg gttacctgg aaacatccc gagggggaa 
      ggctccaca attaacgac cgacttgac caccctgta 
      atacacgtc tcatggacg gacgcaaaa aaatattgc 
      gagtttgtt ggtaagcgc ctacccact gaagccgaa 
      tgggagatg gcgtgcagg gccggcttg agacaaaaa 
      ctgtacccc tggggcaac aaacttaca cctaaaggc 
      gaacactgg gccaatatc tggcaagga gactttccc 
      ttaacaaac actgcagag gatggctac ttatccacg 
      gccccagtt gatagtttt cccgccaac aaattcgga 
      cttcaccat atggcaggg aacgtctgg gaatggact 
      caggataat tggttgaat gaccctgac gccaaagtg 
      aagaaaggg ggctcctac ctctgtcat gagtcttac 
      tgttggagg tatcgctgc gctgcaaga tctttcaat 
      accaaagac agttcggcc ggaaattta ggctttcga 
      tgtgccggt gatgtcaaa taa
    mRNA sequence
    • >TC016314 RA
      ccctgtttt taaacgtca aatttgatt aatatgcgc 
      tgtcattaa aaattcaac ataacctca tattttaaa 
      atgtctcat cgcaactta tgcttataa caatctatt 
      ttagtgcaa aacgatgaa tatttatgc atgtttagt 
      tgcgccttt tactttttg tttcctgtg ataaaaact 
      actcgataa ttttatcga actacttcc ttctaattt 
      acgcaagaa aaccacatt cctactcaa gatgtactt 
      aattctttt atacttaac tactgtact tagtatttc 
      tctcattta cgcctccga ttgtggctg tcacctcaa 
      cagaaactc tcagtgctc aaacgaaga acctcacaa 
      caaatactc aaaaacttt caatgaagg aggcgacag 
      cgacacaaa aacatgtac gagttttga taaaagtga 
      catggtttt aatcgaagc tgcaacttt cgaaatggg 
      aactgataa acctgtctt tgagagtga ccatgaggg 
      gcctgccag aaacgtctc cgttgattc cttttactt 
      ggacaagtt tgaagtttc aaacggaaa gttcagcga 
      gtttgtgct taaaacagg gtacaaaac ggaggccga 
      ggagtttgg cgatagctt tatatttga aatgttagt 
      tcctgaaag tgagaggga aaaatacaa ggactttag 
      ggctgttca agccccatg gtggatcaa aatgaaagg 
      ggttacctg gaaacatcc cgaggggga aggctccac 
      aattaacga ccgacttga ccaccctgt aatacacgt 
      ctcatggac ggacgcaaa aaaatattg cgagtttgt 
      tggtaagcg cctacccac tgaagccga atgggagat 
      ggcgtgcag ggccggctt gagacaaaa actgtaccc 
      ctggggcaa caaacttac acctaaagg cgaacactg 
      ggccaatat ctggcaagg agactttcc cttaacaaa 
      cactgcaga ggatggcta cttatccac ggccccagt 
      tgatagttt tcccgccaa caaattcgg acttcacca 
      tatggcagg gaacgtctg ggaatggac tcaggataa 
      ttggttgaa tgaccctga cgccaaagt gaagaaagg 
      gggctccta cctctgtca tgagtctta ctgttggag 
      gtatcgctg cgctgcaag atctttcaa taccaaaga 
      cagttcggc cggaaattt aggctttcg atgtgccgg 
      tgatgtcaa ataatttgg cagtgaata acaaacaaa 
      cccaagtac ttaaatcat cctgccatc aagtcttcc 
      aagttatat gatatttta gaaatatat tatgattta 
      aata
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY