Status
Please wait ...
Gene information
General information
TC001116 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_007417.3: 11217952..11220040
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
    TC001116
    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_09665

    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)

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


    Fertility
    mature egg deposition blocked number 1st lateral oviduct: number 2nd lateral oviduct: - Number of animals showing the phenotype: 4
    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
    • >TC001116 RA
      MSKLNNRSK KILDISSTI MLVVFVVCC LLLMFSYTD 
      NVSSTRTKY LRTNFPNFY NDFEVQRYT WKCENQKCV 
      KYLVEDEET SLATCNMLC SEPAIWPKP VHIKLTNRE 
      SSIIDKTKI SFNFSQGPV KIMLQNATD LFIKSLESL 
      KPGNQSTPG IKLSINIIL SDPNTNKLK LNTNESYEL 
      TVLKSDSLA VRLSAANFF GARHGLETL NQLIWFDEV 
      VNELRILHG VEIRDYPKF PYRGVMIDT ARNFFPVDL 
      IRKVVDGMA MAKLNVLHL HLTDAVSFP IVLPKVQEL 
      ARFGAYGPD MIYTPQDIR DLLQYSLVR GVRLLLEVD 
      APSHVNAGW SFLQEGANK FVICGESDI FNGHLNPDN 
      DEVLQVLED IYSDLLDLT DNNELFHLG SDEVNLTCW 
      QDTKSANKI AMKLFWAQY TNKMIDRLK NANNNELPE 
      HVIMWSSPL TESPYFEKL DVKVTVQLW LGDPSSVLS 
      HGHRVIYST VGHWYLDCG FGPWKPSMH GGVCDPYTP 
      WHTFYDYRP WVQHGHQEL VLGGEVCLW SEQVGPDSL 
      ETRIWPRSA AFAERIWSD PSAGDDYDI YTRLVSFSD 
      RLKSRGIRT AAIWPLWCS QNPGKC
    CDS sequence
    • >TC001116 RA
      atgtccaaa ctgaacaac agatcgaaa aaaattctt 
      gatatttcg tcaacaata atgttggta gtgtttgtg 
      gtgtgttgc cttctgcta atgtttagc tacaccgac 
      aacgtctca agcaccaga accaaatac ttgcggacc 
      aatttccca aacttttac aatgacttt gaggtgcag 
      cgatacact tggaagtgc gaaaaccaa aaatgcgtc 
      aaatatcta gttgaggac gaggaaact tccctggca 
      acttgtaac atgttgtgc tccgaaccg gcaatttgg 
      ccgaaaccc gttcatatt aaattgaca aatcgcgaa 
      tcgtcgatt atcgataaa acgaaaatt tctttcaac 
      ttttctcaa ggtcccgtg aagattatg ttgcaaaat 
      gctaccgat ttattcata aaaagcctt gaatcttta 
      aaaccagga aaccagtcc acgcctgga attaaatta 
      agcataaat ataattctg tctgatcct aataccaac 
      aagctgaaa ttgaataca aatgagagt tatgagcta 
      acagtcctg aagagcgat tccctcgct gttcggctt 
      tccgcggcg aattttttc ggcgccaga catgggctg 
      gaaacacta aatcaattg atttggttc gatgaagtg 
      gttaacgag ctgcgaatt ctacacggt gttgagata 
      agagattat cccaaattt ccttatcgg ggagtgatg 
      attgacacc gcccgcaat tttttcccg gttgattta 
      attcgaaaa gttgttgat ggaatggca atggctaaa 
      ttaaacgtc ctgcatttg catctgacc gatgcggtt 
      agcttccct atagttttg cctaaagtg caagaactg 
      gctcggttt ggtgcttac ggacctgat atgatctac 
      acaccccaa gatattaga gacttgtta caatattcc 
      ctagttcga ggagtgcga ctgttgctg gaagtcgac 
      gctccaagt catgtcaac gccggttgg agtttcctc 
      caagaagga gcgaacaaa tttgtgatt tgtggcgaa 
      agtgatatt tttaacgga catttaaac cccgacaac 
      gacgaggtt ttgcaagtt ctggaagac atttacagc 
      gatttgtta gatttaact gacaataat gagttgttc 
      catcttggg tctgacgaa gttaacttg acgtgttgg 
      caagatacc aaaagtgcc aataaaatt gcaatgaag 
      ctgttttgg gcccaatac acgaataaa atgatcgat 
      cggcttaaa aacgcaaat aacaatgaa ctgccagaa 
      catgtaatc atgtggtca agccctttg accgaatct 
      ccctatttt gagaaacta gacgtgaag gtaacagtg 
      caattatgg ctcggagac cctagcagt gtcctatcg 
      cacggccac cgtgtcatt tactcaacc gtgggccat 
      tggtacttg gactgcggt ttcggccca tggaagccc 
      agcatgcac ggtggggtg tgcgaccca tacacccca 
      tggcacacg ttttacgac tataggcca tgggtccag 
      cacggccac caggagctg gtgctgggc ggtgaggtg 
      tgtctgtgg tcggagcaa gtgggtcca gattctttg 
      gaaactagg atttggccc cgaagtgca gctttcgct 
      gagcgcatc tggagcgac ccttcagct ggggatgat 
      tacgatatt tacacaaga cttgtgtcg tttagtgat 
      agactcaag agtcgagga attagaacg gcggcgatt 
      tggccgctg tggtgctcg cagaacccg ggcaagtgt 
      tga
    mRNA sequence
    • >TC001116 RA
      gtaaaaata cttgtcgcg atgtccaaa ctgaacaac 
      agatcgaaa aaaattctt gatatttcg tcaacaata 
      atgttggta gtgtttgtg gtgtgttgc cttctgcta 
      atgtttagc tacaccgac aacgtctca agcaccaga 
      accaaatac ttgcggacc aatttccca aacttttac 
      aatgacttt gaggtgcag cgatacact tggaagtgc 
      gaaaaccaa aaatgcgtc aaatatcta gttgaggac 
      gaggaaact tccctggca acttgtaac atgttgtgc 
      tccgaaccg gcaatttgg ccgaaaccc gttcatatt 
      aaattgaca aatcgcgaa tcgtcgatt atcgataaa 
      acgaaaatt tctttcaac ttttctcaa ggtcccgtg 
      aagattatg ttgcaaaat gctaccgat ttattcata 
      aaaagcctt gaatcttta aaaccagga aaccagtcc 
      acgcctgga attaaatta agcataaat ataattctg 
      tctgatcct aataccaac aagctgaaa ttgaataca 
      aatgagagt tatgagcta acagtcctg aagagcgat 
      tccctcgct gttcggctt tccgcggcg aattttttc 
      ggcgccaga catgggctg gaaacacta aatcaattg 
      atttggttc gatgaagtg gttaacgag ctgcgaatt 
      ctacacggt gttgagata agagattat cccaaattt 
      ccttatcgg ggagtgatg attgacacc gcccgcaat 
      tttttcccg gttgattta attcgaaaa gttgttgat 
      ggaatggca atggctaaa ttaaacgtc ctgcatttg 
      catctgacc gatgcggtt agcttccct atagttttg 
      cctaaagtg caagaactg gctcggttt ggtgcttac 
      ggacctgat atgatctac acaccccaa gatattaga 
      gacttgtta caatattcc ctagttcga ggagtgcga 
      ctgttgctg gaagtcgac gctccaagt catgtcaac 
      gccggttgg agtttcctc caagaagga gcgaacaaa 
      tttgtgatt tgtggcgaa agtgatatt tttaacgga 
      catttaaac cccgacaac gacgaggtt ttgcaagtt 
      ctggaagac atttacagc gatttgtta gatttaact 
      gacaataat gagttgttc catcttggg tctgacgaa 
      gttaacttg acgtgttgg caagatacc aaaagtgcc 
      aataaaatt gcaatgaag ctgttttgg gcccaatac 
      acgaataaa atgatcgat cggcttaaa aacgcaaat 
      aacaatgaa ctgccagaa catgtaatc atgtggtca 
      agccctttg accgaatct ccctatttt gagaaacta 
      gacgtgaag gtaacagtg caattatgg ctcggagac 
      cctagcagt gtcctatcg cacggccac cgtgtcatt 
      tactcaacc gtgggccat tggtacttg gactgcggt 
      ttcggccca tggaagccc agcatgcac ggtggggtg 
      tgcgaccca tacacccca tggcacacg ttttacgac 
      tataggcca tgggtccag cacggccac caggagctg 
      gtgctgggc ggtgaggtg tgtctgtgg tcggagcaa 
      gtgggtcca gattctttg gaaactagg atttggccc 
      cgaagtgca gctttcgct gagcgcatc tggagcgac 
      ccttcagct ggggatgat tacgatatt tacacaaga 
      cttgtgtcg tttagtgat agactcaag agtcgagga 
      attagaacg gcggcgatt tggccgctg tggtgctcg 
      cagaacccg ggcaagtgt tgatctggt ctcacggga 
      actcatctt cggggcaga taaacaatg cgggccctt 
      ccgtttccg caaaagttg gagcactcg cagcgcact 
      cagcgccct gtgtggtgt gcgcccatc ataaacaag 
      caaaacatt cggtgtgtg gtgaagtgg ctattattg 
      gggtggagt gtttgtggc aatttttta ctaccaatt 
      ttacgaaat atacttatt tattgaaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY