Status
Please wait ...
Gene information
General information
TC000059 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_007418.3: 10839235..10842325
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
    TC000059
    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_06985

    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: 50.0% (includes death as pupa, adult)

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


    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection


    Fertility
    tropharium structure irregular - Number of animals showing the phenotype: 1

    mature egg not present - Number of animals showing the phenotype: 1
    yolk amount decreased - Number of animals showing the phenotype: 1

    ovary without detectable defects - Number of animals showing the phenotype: 3
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 20 larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): more than 80%

    larval musculature not present - Penetrance (percentage of animals/eggs on slide): more than 80%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    head capsule size decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    legs size decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen seta shape bent - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen seta pattern irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 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: % (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
    • >TC000059 RA
      MSDSEDDNY CFFGKPLQP YDEDSFPKK KPISVEDQI 
      ATDAQGRRR FHGAFTGGF SAGFFNTVG SLEGWTPSE 
      FKSTRQDKA ASKSQKPED FMDDEDLGQ FGIAPQTVR 
      ATSDYSTSK KRKRQVFNE GPIPGEPVL HSLLTSGNE 
      TIGYLLLKN IGLKGKNSE GEERVYGCE MPKTYEISR 
      DDEFCQYVI PDIYKEYLA KPKDNTFGL GYVGLDKSH 
      VNLFKSSNL VIRERNKKK ISITGQAFG VGAFEDEDE 
      DIYVKEDMS RYDFELTSE KTTKFDKTT KEKTVFDDF 
      VPSKNTLPP REIFLPPTI PHSFTGKHK VKRSRFEPL 
      PTPETPERK QMNPEIRAR QLGEETVTV VTEEKSKIE 
      QTKPEEQSK VEENISEEK PKNLLTLAL GFDRFVSAS 
      KPEDPSNIL ETVEKSDCM HGTQEMRDA AKMKMFGPL 
      TRISSDWHP CSLLCKRFN VPEPHVDEL NASKTRKRT 
      KNLIFEYEK FAEASIIDL KPGLSTKET DVESDNNKN 
      ENIVQEKIV TIEEEKRET EEKSQVSKD ITEKIDVDK 
      NMDLFKAVF LSSSESEDE EEEKKREKT DKTTEMKTS 
      ILSDSFLPK IKPIKSGIL SDMDFSRFD ESKATEVNE 
      ETRTVPQVQ DPLSYGPQL PEKLIKNTA TSIEKPKLC 
      DNSDDEWVE KPKEKKHKE KKKHKEKKS SHKKKHKHS 
      KDR
    CDS sequence
    • >TC000059 RA
      atgtctgat tcagaagac gataactat tgtttcttc 
      ggcaagcct ctgcagccc tatgatgaa gactccttc 
      cccaagaaa aagcccatt tcggtggag gaccagatc 
      gccaccgat gcccaaggg cgacggcgc ttccacggg 
      gccttcact ggcggcttc tctgcgggt tttttcaac 
      acagtgggg tccctcgaa ggctggact cctagcgag 
      tttaagagt acgagacaa gacaaagcg gcgagtaaa 
      tcgcaaaaa ccggaggat ttcatggat gatgaggat 
      ttgggccag tttgggata gccccccag actgtgagg 
      gccaccagt gattattca acgagcaag aagcggaaa 
      agacaggtt tttaacgag gggccgatt cctggggag 
      cctgtgctt cattcgttg ttgacgagt ggtaacgaa 
      acgattggg tatttgtta ctgaagaat atcgggttg 
      aaggggaaa aatagtgag ggggaggaa agggtttac 
      gggtgcgaa atgcccaag acttatgaa atatcacga 
      gatgatgag ttttgccaa tacgttatc ccggatatt 
      tacaaggaa tatttggca aagcctaag gataacact 
      tttgggctg ggttatgtt gggttggat aagagccac 
      gtgaacttg tttaaaagc tcgaatttg gtgataagg 
      gagcgaaac aagaagaaa atttccata acggggcaa 
      gcgttcggt gttggcgct ttcgaagat gaagatgaa 
      gatatttac gtgaaagag gacatgagt cggtacgat 
      tttgaacta actagcgaa aaaacaacc aaatttgat 
      aaaaccacc aaagaaaaa accgttttc gacgacttc 
      gtccctagt aaaaatacc ttaccgcca agagaaatt 
      tttttacca ccaacaatc ccgcacagt ttcactggg 
      aaacacaaa gtgaaaagg tcacggttt gaaccgtta 
      ccaacccct gaaacgccc gaaaggaag caaatgaat 
      cctgaaata agggcaaga caattgggg gaggaaaca 
      gtcactgtc gttactgaa gaaaaatcg aaaattgag 
      caaactaaa cctgaagaa cagtccaaa gttgaggaa 
      aatataagt gaagaaaag cctaaaaat ttgctcact 
      ttggcgctt ggttttgat cggtttgtc tcagcttcg 
      aaacctgaa gatccgtcg aatattctc gaaacggtg 
      gaaaagtct gactgtatg catggaacc caagaaatg 
      agggatgcg gctaaaatg aagatgttt gggcctttg 
      acgagaatt tccagtgat tggcacccc tgtagtctt 
      ctgtgcaag aggtttaac gtgcctgag ccccacgtt 
      gatgagctg aacgcttcg aaaactaga aaacggaca 
      aaaaatctg atctttgaa tatgagaaa tttgctgaa 
      gcttcaata attgactta aagccaggc ctatctaca 
      aaagaaaca gacgttgaa agtgacaac aataaaaat 
      gaaaatatt gtgcaagaa aaaatcgta acgattgag 
      gaagaaaaa agagaaact gaggaaaag tcgcaggtt 
      tctaaagac ataaccgag aagatcgac gtagacaaa 
      aacatggat ttgttcaaa gcggttttc ttgagtagt 
      agcgaatca gaagatgaa gaagaggag aagaaacga 
      gaaaaaacc gataaaaca accgaaatg aaaacgagt 
      attttgtcc gattcgttt ttaccaaaa attaaacca 
      atcaaatcg gggattttg tcagatatg gatttttca 
      cgtttcgat gaatcgaag gcaacggaa gtaaatgaa 
      gaaacaaga actgtgcca caagttcaa gacccactt 
      tcttatgga ccacagttg cctgaaaaa ttgattaaa 
      aacactgca acttcgata gagaaacca aaattgtgc 
      gataattcc gatgatgag tgggtggaa aaaccaaaa 
      gagaagaaa cacaaggaa aagaagaag cataaagag 
      aagaaaagt tcacataaa aagaaacac aagcacagt 
      aaagaccga tga
    mRNA sequence
    • >TC000059 RA
      tagctaatt tccccaacc aaacaaatc caaaaagtt 
      gggttaggt gatatcgcc acagtccct aaatacaca 
      acttttaat tgattgtga acatgtctg attcagaag 
      acgataact attgtttct tcggcaagc ctctgcagc 
      cctatgatg aagactcct tccccaaga aaaagccca 
      tttcggtgg aggaccaga tcgccaccg atgcccaag 
      ggcgacggc gcttccacg gggccttca ctggcggct 
      tctctgcgg gttttttca acacagtgg ggtccctcg 
      aaggctgga ctcctagcg agtttaaga gtacgagac 
      aagacaaag cggcgagta aatcgcaaa aaccggagg 
      atttcatgg atgatgagg atttgggcc agtttggga 
      tagcccccc agactgtga gggccacca gtgattatt 
      caacgagca agaagcgga aaagacagg tttttaacg 
      aggggccga ttcctgggg agcctgtgc ttcattcgt 
      tgttgacga gtggtaacg aaacgattg ggtatttgt 
      tactgaaga atatcgggt tgaagggga aaaatagtg 
      agggggagg aaagggttt acgggtgcg aaatgccca 
      agacttatg aaatatcac gagatgatg agttttgcc 
      aatacgtta tcccggata tttacaagg aatatttgg 
      caaagccta aggataaca cttttgggc tgggttatg 
      ttgggttgg ataagagcc acgtgaact tgtttaaaa 
      gctcgaatt tggtgataa gggagcgaa acaagaaga 
      aaatttcca taacggggc aagcgttcg gtgttggcg 
      ctttcgaag atgaagatg aagatattt acgtgaaag 
      aggacatga gtcggtacg attttgaac taactagcg 
      aaaaaacaa ccaaatttg ataaaacca ccaaagaaa 
      aaaccgttt tcgacgact tcgtcccta gtaaaaata 
      ccttaccgc caagagaaa tttttttac caccaacaa 
      tcccgcaca gtttcactg ggaaacaca aagtgaaaa 
      ggtcacggt ttgaaccgt taccaaccc ctgaaacgc 
      ccgaaagga agcaaatga atcctgaaa taagggcaa 
      gacaattgg gggaggaaa cagtcactg tcgttactg 
      aagaaaaat cgaaaattg agcaaacta aacctgaag 
      aacagtcca aagttgagg aaaatataa gtgaagaaa 
      agcctaaaa atttgctca ctttggcgc ttggttttg 
      atcggtttg tctcagctt cgaaacctg aagatccgt 
      cgaatattc tcgaaacgg tggaaaagt ctgactgta 
      tgcatggaa cccaagaaa tgagggatg cggctaaaa 
      tgaagatgt ttgggcctt tgacgagaa tttccagtg 
      attggcacc cctgtagtc ttctgtgca agaggttta 
      acgtgcctg agccccacg ttgatgagc tgaacgctt 
      cgaaaacta gaaaacgga caaaaaatc tgatctttg 
      aatatgaga aatttgctg aagcttcaa taattgact 
      taaagccag gcctatcta caaaagaaa cagacgttg 
      aaagtgaca acaataaaa atgaaaata ttgtgcaag 
      aaaaaatcg taacgattg aggaagaaa aaagagaaa 
      ctgaggaaa agtcgcagg tttctaaag acataaccg 
      agaagatcg acgtagaca aaaacatgg atttgttca 
      aagcggttt tcttgagta gtagcgaat cagaagatg 
      aagaagagg agaagaaac gagaaaaaa ccgataaaa 
      caaccgaaa tgaaaacga gtattttgt ccgattcgt 
      ttttaccaa aaattaaac caatcaaat cggggattt 
      tgtcagata tggattttt cacgtttcg atgaatcga 
      aggcaacgg aagtaaatg aagaaacaa gaactgtgc 
      cacaagttc aagacccac tttcttatg gaccacagt 
      tgcctgaaa aattgatta aaaacactg caacttcga 
      tagagaaac caaaattgt gcgataatt ccgatgatg 
      agtgggtgg aaaaaccaa aagagaaga aacacaagg 
      aaaagaaga agcataaag agaagaaaa gttcacata 
      aaaagaaac acaagcaca gtaaagacc gatgacgtt 
      tattaattg attttgcca catttcata attttaatt 
      taattaatt taattacac tgattgaag ctgtgatat 
      ttatttaga atgtggatc gtaataaaa caatttgtt 
      gagt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY