Status
Please wait ...
Gene information
General information
TC007858 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_007419.2: 1741483..1744715
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
    TC007858
    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_01274

    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 immediately after eclosion - 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: < 50
    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 - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    remarks: entire repetition development delayed, later than schedule, hours 72
    Pupal morphology
    remarks: entire repetition development delayed, later than schedule, hours 72
    Adult morphology
    remarks: entire repetition development delayed, later than schedule, hours 72
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC007858 RA
      MKTLAVSLL TIFIFSVAH GEPDYYWRD 
      YHGKIPADA IVGGRDSRG YPTYIGQAF 
      VRCHGILIG QIYPGQKTI TTSKEGIHV 
      TDVYNRILC SGHKENFSW VPGNAATLH 
      LTTINKHLV SGGTEWGKV LNIGRVKYQ 
      GELIVGKVC SGTIGKAKL YFPYKGEEI 
      ESDTYEVLA YEDKPNEVE SV
    CDS sequence
    • >TC007858 RA
      atgaagaca ctagctgtt agtttgcta acaattttt 
      attttttct gtcgcacat ggcgagcca gattattat 
      tggcgcgac tatcacgga aaaatccct gccgatgcc 
      attgtgggt gggagagac tccagaggg taccccacc 
      tacataggc caggctttc gtccgttgt cacggcatt 
      ttaattggg caaatatat ccaggccaa aaaactata 
      acgacctcc aaggaagga atacacgtt actgatgtt 
      tacaacaga atactgtgt agtggtcac aaagagaac 
      ttctcctgg gtgcccgga aacgcagca acgttgcat 
      ttaaccaca attaataag cacttagtg tcaggtgga 
      actgaatgg ggaaaggtc cttaacata ggtcgtgtc 
      aaatatcaa ggcgaatta attgtgggg aaagtctgt 
      tccggaacg ataggaaaa gccaaactt tattttcca 
      tacaagggt gaagaaatt gaaagcgac acatacgaa 
      gtgcttgct tatgaggac aagccaaat gaagttgaa 
      tcggtttaa
    mRNA sequence
    • >TC007858 RA
      tgtcagctg tcaaccatc cgtcaagtc atctacgga 
      atgaagccc gtcctgtca ccccccttc tcccaaagg 
      aattcgaca aagcagtta cgcaaatgt accaactat 
      tcttaagaa aattccatt aagtctttt aatttagta 
      tcgctgata atttagaca acaacaaca acagttgcg 
      cttattgat ttatgcact tttgaacac ctgaccgat 
      ttttacgac cacaacgaa agtgagacc gaacgccaa 
      accaaaagc tttagaaca gtcagtcag cataatgtg 
      atggcgcca cagattgca atcttaccg gacgaaatg 
      gaaatgaag acactagct gttagtttg ctaacaatt 
      tttattttt tctgtcgca catggcgag ccagattat 
      tattggcgc gactatcac ggaaaaatc cctgccgat 
      gccattgtg ggtgggaga gactccaga gggtacccc 
      acctacata ggccaggct ttcgtccgt tgtcacggc 
      attttaatt gggcaaata tatccaggc caaaaaact 
      ataacgacc tccaaggaa ggaatacac gttactgat 
      gtttacaac agaatactg tgtagtggt cacaaagag 
      aacttctcc tgggtgccc ggaaacgca gcaacgttg 
      catttaacc acaattaat aagcactta gtgtcaggt 
      ggaactgaa tggggaaag gtccttaac ataggtcgt 
      gtcaaatat caaggcgaa ttaattgtg gggaaagtc 
      tgttccgga acgatagga aaagccaaa ctttatttt 
      ccatacaag ggtgaagaa attgaaagc gacacatac 
      gaagtgctt gcttatgag gacaagcca aatgaagtt 
      gaatcggtt taatcactg gagccacaa atcaacttt 
      tttttattt ccacattaa aaaatcgta actgaatta 
      ctgaacatc tgcagtaac gtgcgtcaa taataaaga 
      aatcaaaaa ctaaataat aataatatt aataacatt 
      tggctttta gaagccaaa aggttatat tcttatcac 
      aaaatacgt attttttcc catactttt gtataaaga 
      cgcctcgaa taaaataaa tgtaaacaa accaaaatg 
      aatcaaatg ttattctta tgtctgaca gctccgctt 
      ttacacctt gtaacatga gagcccggt aagtacaaa 
      aaaatccaa cagttggtt cgattaacg cagagttta 
      gattattat tggagggat tatgacggg aaaattcct 
      gtggacgct gtagagggt ggaagagac gtaacagac 
      catcctaca tacattggt caagctttc gtcataaac 
      catggcatt atacctggg cgaatttat cccgggcaa 
      aaaaatatc acgacttca aaacaagga atccacgtg 
      actagcctt tacaacaag gtaaaaaac caaaaactg 
      gacaattta aataattgt tttcgcaga tattgtgca 
      gtaatcaca aagaaaact tctcgtggc ttttcgtta 
      gaaaactac caacaagca tttggttaa aggtgggac 
      gagtggggc gatattttg aatattgga cgagttgag 
      taccgagga gaattaatt gtggggttc ccggaaaag 
      caaaattgt attttccgt ttcaaggcg aggaaattg 
      ccatcaata gttatgaag tacttgttt ataatgatg 
      agccaaagt ttgttaaaa catcttaaa taaaaacat 
      attttctta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY