Status
Please wait ...
Gene information
General information
TC009284 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_007422.5: 1916660..1921653
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
    TC009284
    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.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01519

    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: 20.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    Fertility
    ovary without detectable defects - Number of animals showing the phenotype: 1
    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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 2 (41 dpi)
    Days post injection


    Fertility
    egg production: number <50% of expected -
    mature egg deposition blocked number 1st lateral oviduct: 2 number 2nd lateral oviduct: >5 - Number of animals showing the phenotype: 1
    ovary without detectable defects - Number of animals showing the phenotype: 3
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009284 RA
      MATPTVAIL GLVLLTGAL AGPFERQQN AQLYDEVRQ 
      LLSLAQGYQ AGVQNDAPS EQASDKPDV PRAVKNWPK 
      KPLKLGQVS GVSVNSAFQ PVIFHRADR VFDQYTFNS 
      TNHFQQLHL GPIAEPTVL TLDPQTGQV LGQWGENFF 
      FMPHGLTID RHDNLWVTD VALHQAFKF KPGELSPIL 
      TFGQRLTPG SSKNHLCMP TSIAVASEG EVFIADGYC 
      NSRILKFNA AGVLLRIIP SPPEFLSLQ VPHGVALIE 
      SLDRLCVAD RENMRVTCP RAGLYSMKG KSEPALTIQ 
      QPDMGRVFG VAAKGKLIY AVNGPTNQL LPVQGLTID 
      PQAEAVIDH WAPEEGFGN PHAIAVCPN GSALYVAEI 
      GPNRIWKFE LVPPKKK
    CDS sequence
    • >TC009284 RA
      atggcgacc ccaaccgtc gctatcttg ggcttggtg 
      ctcctgact ggggccctt gcagggccc tttgaacga 
      caacaaaac gcccaactg tatgacgag gtcagacaa 
      cttctatcc ctcgctcaa ggttaccag gcgggcgtc 
      caaaatgac gccccttcg gagcaagcc tccgacaaa 
      cccgacgtt ccaagggct gtgaaaaac tggccgaag 
      aagccgctt aaactaggt caagtgtcg ggagtctcc 
      gtgaattcc gccttccaa cccgtcatt ttccaccgt 
      gcagatcga gtttttgac caatacaca tttaactca 
      acaaaccac ttccaacaa ctccacttg ggaccaatc 
      gcagaaccc acagttctc acccttgac ccacaaacc 
      ggccaggtt ttgggccaa tggggcgaa aacttcttc 
      ttcatgccc catggcctg accatcgac cggcacgac 
      aacctgtgg gtgaccgac gtggccctc catcaagcc 
      ttcaaattc aaaccgggc gaattgagc cctattttg 
      actttcggc cagcgcttg actcccggt tcgagcaaa 
      aaccacctg tgcatgccc acttcgatc gctgtggcc 
      tccgaaggc gaggttttc atcgctgac ggttactgc 
      aacagcagg attttgaaa tttaatgcc gcaggagtc 
      ctgttgaga attattccg agccctcca gagtttttg 
      tcgctgcaa gtgccccac ggagtcgcc ctcatcgaa 
      tctttagac cgattgtgt gtcgctgat agggaaaat 
      atgagagtc acttgtccc agagccgga ttgtacagc 
      atgaaaggg aaatccgag ccggctctc accatccaa 
      caacccgat atgggacga gtgtttgga gtggcagca 
      aaaggaaaa ttgatttat gccgttaat ggaccaaca 
      aatcagctg ctaccggtc caaggactg accattgat 
      ccgcaagct gaggctgtc atcgaccac tgggcccca 
      gaagagggc tttgggaac ccgcacgcc atcgccgtg 
      tgccccaac ggttcggcc ctgtacgtg gccgaaatc 
      ggtccgaac cggatctgg aaattcgag ctggtcccg 
      ccgaagaag aagtaa
    mRNA sequence
    • >TC009284 RA
      ttaaaaata ttaaatttt ttcactttc ttgaagatg 
      gaaaccagc tattgattt aaaaagcat cagtcgagc 
      catggcgac cccaaccgt cgctatctt gggcttggt 
      gctcctgac tggggccct tgcagggcc ctttgaacg 
      acaacaaaa cgcccaact gtatgacga ggtcagaca 
      acttctatc cctcgctca aggttacca ggcgggcgt 
      ccaaaatga cgccccttc ggagcaagc ctccgacaa 
      acccgacgt tccaagggc tgtgaaaaa ctggccgaa 
      gaagccgct taaactagg tcaagtgtc gggagtctc 
      cgtgaattc cgccttcca acccgtcat tttccaccg 
      tgcagatcg agtttttga ccaatacac atttaactc 
      aacaaacca cttccaaca actccactt gggaccaat 
      cgcagaacc cacagttct cacccttga cccacaaac 
      cggccaggt tttgggcca atggggcga aaacttctt 
      cttcatgcc ccatggcct gaccatcga ccggcacga 
      caacctgtg ggtgaccga cgtggccct ccatcaagc 
      cttcaaatt caaaccggg cgaattgag ccctatttt 
      gactttcgg ccagcgctt gactcccgg ttcgagcaa 
      aaaccacct gtgcatgcc cacttcgat cgctgtggc 
      ctccgaagg cgaggtttt catcgctga cggttactg 
      caacagcag gattttgaa atttaatgc cgcaggagt 
      cctgttgag aattattcc gagccctcc agagttttt 
      gtcgctgca agtgcccca cggagtcgc cctcatcga 
      atctttaga ccgattgtg tgtcgctga tagggaaaa 
      tatgagagt cacttgtcc cagagccgg attgtacag 
      catgaaagg gaaatccga gccggctct caccatcca 
      acaacccga tatgggacg agtgtttgg agtggcagc 
      aaaaggaaa attgattta tgccgttaa tggaccaac 
      aaatcagct gctaccggt ccaaggact gaccattga 
      tccgcaagc tgaggctgt catcgacca ctgggcccc 
      agaagaggg ctttgggaa cccgcacgc catcgccgt 
      gtgccccaa cggttcggc cctgtacgt ggccgaaat 
      cggtccgaa ccggatctg gaaattcga gctggtccc 
      gccgaagaa gaagtaacc aaatatcaa acattgatt 
      tataatttt tcaaaagag agaaacaat agtttagtt 
      gagccgtaa ttgtgtata gaaattatt gttgaaatg 
      tccttgctg taccatcat ttctataga caataaaag 
      aaaaatgtc ccg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY