Status
Please wait ...
Gene information
General information
TC009299 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: 1773314..1781441
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
    TC009299
    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_01524

    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)

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    larva surface darker - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    Comment: larvae seem to have an increased development, about 3/4 are already larval stage two and appear to be unable to mold
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    eclosion not fulfilled (not completely eclosed) - Number of animals showing the phenotype: 5 (16 dpi)
    Days post injection



    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 5 (19 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (22 dpi)
    Days post injection


    Pupal morphology
    wings shortened - Number of animals showing the phenotype: 8

    wings not closed - Number of animals showing the phenotype: 8
    Adult morphology
    wings not closed - Number of animals showing the phenotype: 5

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009299 RA
      MGCFGNRDA AAASSEDIR SQKRINDHI NRQLAKEKQ 
      VYRATHRLL LLGAGESGK STIVKQMRI LHVNGFSER 
      EKKQKIEDI KKNIRDAII TITGAMSTL SPQVQLEKP 
      ENQARVDWI QDCATGPDF DYPPEFYEH TEALWKDKG 
      VQATYDRSN EYQLIDCAK YFLDQVSVI KQPNYTPTE 
      QDILRCRVL TSGIFETLF QVDKVNFHM FDVGGQRDE 
      RRKWIQCFN DVTAIIFVT ACSSYNMVL REDPTQNRL 
      KESLELFKS IWNNRWLRT ISVILFLNK QDLLAEKIL 
      AGKSKLEEY FEDFARYQP PQEVANDAN EHPEVFRAK 
      YFIRDEFLR ISTASGEGK HYCYPHFTC AVDTENIKR 
      VFNDCRDII QRMHLRQYE LL
    CDS sequence
    • >TC009299 RA
      atgggctgc ttcggcaac agggacgcc gccgccgcc 
      tcctcggag gacatcagg agtcagaag aggatcaac 
      gaccacatc aacagacaa ctcgccaag gagaagcag 
      gtctacagg gccacgcac aggctgctc ctcctgggg 
      gcgggcgag tccggcaag tccaccatc gtcaagcag 
      atgcggatt ctgcacgtc aacggcttc agcgagagg 
      gaaaagaag cagaagatt gaagacatc aagaagaat 
      atcagagat gccattatt acaataacg ggagcgatg 
      tcgactttg tctcctcag gtgcaatta gaaaagcca 
      gagaatcaa gcccgagtg gactggatt caggattgc 
      gcgactggt cccgacttc gattaccca ccagagttt 
      tatgaacac acagaggct ctctggaaa gacaaaggt 
      gtacaggct acgtacgat agaagtaac gaatatcaa 
      ttgatagat tgtgcgaag tacttcctt gatcaagtg 
      agtgtaatc aaacaaccc aattacact ccaacagag 
      caggacatc ctgcgctgc cgtgtactt accagcggc 
      atattcgaa acgctcttc caggttgac aaagtcaac 
      tttcacatg ttcgatgtc ggtggccaa agggacgaa 
      agacgaaaa tggatccaa tgtttcaat gacgtcacg 
      gcgattatc ttcgtcacg gcgtgtagc tcgtataac 
      atggttctg agggaggat cccacccaa aataggcta 
      aaagaaagc cttgaactg ttcaaatcc atatggaac 
      aacaggtgg ttgcgtacc atttccgtc atacttttt 
      ctcaacaag caggatctg ctcgcggaa aaaatcctt 
      gcaggaaaa agcaaactg gaggaatac tttgaagac 
      tttgcgcgc tatcagccg ccacaggaa gtcgcgaac 
      gacgcaaac gaacatcct gaagttttt cgcgccaag 
      tacttcatc cgagacgag ttcctgcgt ataagtaca 
      gcctctggt gaaggcaag cactattgt tatcctcac 
      tttacttgt gccgttgat acggagaat atcaagaga 
      gtgtttaac gactgccgt gatatcatt cagcgtatg 
      cacctccgc cagtatgaa ctcttataa
    mRNA sequence
    • >TC009299 RA
      cgccgctct ccaaggccg tccagaacg cgagtcagt 
      cggtgtcgt cgtcggcgg acatgttaa attcggccg 
      tcaactctc agacgacgt ccccaaagt gctgaaagc 
      agtgcatcg tgagtgcgg tgttgccct ttgagcgtc 
      ggtgtcgtc ggcagacgg cggaggcgg tgtcggtgc 
      tggtggcgg gccgcggcc atcgggtcc tccaagggt 
      ggtgtacaa gtgcaccga gccggagtc tagcgcgtc 
      gtcgccgtc gtctatttt ggtgcgcgc cgcggcggc 
      tggatgtag tggggccac ccgtcctag taaaaatag 
      caccgtgat ggcgggccc ccgctggtg acggggccg 
      ggggccgtg ggccgcgat gatcgggtg ctgagcgcg 
      agcgcggcg ggcgaggac agccacggt ggcgtcggg 
      tccagagtg cggccccgt ggccgccga caagggggc 
      tgattgctg gtggtcccc tctggcggc catgggctg 
      cttcggcaa cagggacgc cgccgccgc ctcctcgga 
      ggacatcag gagtcagaa gaggatcaa cgaccacat 
      caacagaca actcgccaa ggagaagca ggtctacag 
      ggccacgca caggctgct cctcctggg ggcgggcga 
      gtccggcaa gtccaccat cgtcaagca gatgcggat 
      tctgcacgt caacggctt cagcgagag ggaaaagaa 
      gcagaagat tgaagacat caagaagaa tatcagaga 
      tgccattat tacaataac gggagcgat gtcgacttt 
      gtctcctca ggtgcaatt agaaaagcc agagaatca 
      agcccgagt ggactggat tcaggattg cgcgactgg 
      tcccgactt cgattaccc accagagtt ttatgaaca 
      cacagaggc tctctggaa agacaaagg tgtacaggc 
      tacgtacga tagaagtaa cgaatatca attgataga 
      ttgtgcgaa gtacttcct tgatcaagt gagtgtaat 
      caaacaacc caattacac tccaacaga gcaggacat 
      cctgcgctg ccgtgtact taccagcgg catattcga 
      aacgctctt ccaggttga caaagtcaa ctttcacat 
      gttcgatgt cggtggcca aagggacga aagacgaaa 
      atggatcca atgtttcaa tgacgtcac ggcgattat 
      cttcgtcac ggcgtgtag ctcgtataa catggttct 
      gagggagga tcccaccca aaataggct aaaagaaag 
      ccttgaact gttcaaatc catatggaa caacaggtg 
      gttgcgtac catttccgt catactttt tctcaacaa 
      gcaggatct gctcgcgga aaaaatcct tgcaggaaa 
      aagcaaact ggaggaata ctttgaaga ctttgcgcg 
      ctatcagcc gccacagga agtcgcgaa cgacgcaaa 
      cgaacatcc tgaagtttt tcgcgccaa gtacttcat 
      ccgagacga gttcctgcg tataagtac agcctctgg 
      tgaaggcaa gcactattg ttatcctca ctttacttg 
      tgccgttga tacggagaa tatcaagag agtgtttaa 
      cgactgccg tgatatcat tcagcgtat gcacctccg 
      ccagtatga actcttata accgcccac ctcattttt 
      tagtctgtt gttttgtct ccaacgctt tcttactaa 
      caaaagtcg attccatga tgattacgt ttgtcaact 
      aacacacac acacataca caaactgta ggaccaact 
      gagacaacg caaatttca ttttttcgt actatatag 
      tgtcgtcag taacaaacc aaccaagtt gaaaatttg 
      gcaaacgta acacgttct ctgtcagtc gcatgcatt 
      tcatttgtt tttgacaat tttttatcg tttttagac 
      acgcgagta tcatgataa aagtacaaa tcactgaag 
      tttcagtca atttgccat aatctcttc ttttgttcg 
      agttttatg atttctcat ggacccata tgtgtttgt 
      catgaacat cattgtgat atcaaatta gtggttata 
      gatcatata aaatagcaa ataagttat tgatttacc 
      gatttttcg ttttacgtt gagtggggg cgtccccga 
      aacaagcca acttgattt tgacgttta cggggggcg 
      gtcgctatg gtgctctct ttcattttt tactgtaga 
      ggcgccccc gcgatcggt gaatatgtt catggattc 
      tattcatat ttttggaat tgtgataat ctaaacttt 
      ttatacact tatcaatga attgtttgt aaaaaagtc 
      gaatttcgt gtgcaatct catttaaca agtcaagga 
      tcgcagtta acaatcatt atttgtaat gatatattt 
      ttatatgtt aaccttaaa gtgttgtat ttattttta 
      ttattcgtt gagattagt gctagtgca ataagttta 
      gttgatgat tttggcaca agtgttgtg cgtctgctc 
      aattcaaag aattcgtac ttaaggacg tgtccgggc 
      gtttttgag ttgagtgga gccaggttt agttgttgg 
      ttttactaa tctactaca gatagtgta agcgatgga 
      gacttttaa tttttacaa tctgtagat gcacaaaga 
      agagtgtga atctagcta tatgtccat gaaaccatc 
      ttgtaaaat aaggtacgg aactagtgt aatacatca 
      ctatagatc agtgtgttt cgtctctcg ttctgattg 
      gtttcttat cggttttag tttacctta tttgtgagt 
      tcggttcgg cgggattat cactctgat aaattcatg 
      cttttatta gttcggtag tgactaatt aataataaa 
      atatatatg tgccgctag tctaataaa cggaacaat 
      gaaattgcg tttgttcat ttgtttttt attttggcg 
      agttgcact gttccagtt taaaaagtt tactgaatg 
      ttatatttg ttaataaat tataaatat ttatatctg 
      taaaagtga gtttgtggt caagtcgta gaaacgttt 
      cttttcttt actcaaaaa acttttacc ggccagaat 
      attcgatgt cattgaatg tatagaaga taaaaaagt 
      tttacttct tgactatat acacactct aagattcgg 
      ctgactgta ttatatcag catattgct cgtccgtcg 
      tcacttctc atagaatct cctaagttt aaagaaaaa 
      aaaacattt tttgttgtc aatatgccg ataccatac 
      atgaacctg ttcttcctg actcctggt gactcagag 
      tgacctcgt ggtcgggct attgcacaa ctgcagtaa 
      aagcaattt tgtctaggt atatgggaa gaaaagcag 
      cgagcgtgt gtgtgaatg tctgtgcgc gcgcaaatg 
      tgtgtgtga attcatcgt tgtgagctg atctaagca 
      gtattcttt tgttttatt tgtttattg ttttgccaa 
      tattgtata tgtgaacac aatgtgaga ttcaaagca 
      tgcgctgtt tggtgaaaa ctgcctgta atgaatctt 
      gtatctata aatatataa ataaatgaa taaaatatg 
      aaattatat gaggatatg taactaaat gacctgtaa 
      taaatatgt cttatttaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY