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Gene information
General information
TC010253 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.

NW_015450712.1: 132721..134387
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
    TC010253
    Gene ontology

    GO terms for Tribolium

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    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 *
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    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
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    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 *
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    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
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    Email
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    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_04798

    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: 40.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (3 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%
    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    adult lethality - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC010253 RA
      MLITTSLTG DLLAVFLTL VLIIVTYCK WSYQYWERK 
      HLPYLEPQI PFGNVGDSI KGKTNFGIT IKKIYEEMK 
      HNGWKHGGL YVFTEPNYM VLDLEYVKN IMTKDFQYF 
      VDRSTYYNK KEDPLNAHL LNLGGTKWR NLRTKLTPT 
      FTSGKMKMM FQTLADCQT GLLKRMEKE RLTRQPIDI 
      KEVLACFTT EIIGSCAFG LNCKAFEDE NSPFRVYGR 
      KVFATSKLQ RLKRTIATI FPTLGYLFN ISITPKDIT 
      NFYLNVVKD TVEYREKNN YNRNDFMQL LIDLKNNKL 
      EGGTSNGGF TLKEVAAQS FVFFLAGFE TSSTLMTFA 
      LYELARHQE IQDIVREEI NEVLRKHNG NVTYDSIND 
      MKYLSQVID ETLRLYPPA SLVNRKCIK DYQVPDCDL 
      VIEKGTTVL IPIMGIHYD KDYYPDPEK FDPERFTEE 
      NKNARHNYA HIPFGEGPR ICIGMRFGL MQTKVGLSC 
      LLKHYKFTV NKRTQEPLK MQPSPLILS AEGEIWLDA 
      EKL
    CDS sequence
    • >TC010253 RA
      atgctcatt accacttct ttaaccggc gatttgctc 
      gccgtattt ttaacatta gtgttgatc attgtcaca 
      tattgtaaa tggagttac cagtattgg gaacgcaaa 
      cacttgccc taccttgaa ccgcaaatc cctttcgga 
      aacgttgga gactcaatc aaaggtaaa acaaatttt 
      ggaatcacg attaaaaaa atttacgaa gagatgaaa 
      cacaacgga tggaaacat gggggactt tacgttttc 
      acagaacct aattacatg gtccttgat cttgaatac 
      gtcaagaat ataatgacc aaagacttt caatatttc 
      gtcgatcgt tcaacttat tataacaaa aaagaggat 
      ccgttaaat gcacatttg cttaattta ggtgggaca 
      aagtggcga aatttacga actaaactc acccccact 
      ttcacatcg gggaaaatg aaaatgatg tttcagact 
      ttggccgat tgtcaaacc ggtcttctg aaaaggatg 
      gagaaagag agacttact agacaacca atcgatatc 
      aaagaagtt ctagcgtgt ttcaccact gaaataatc 
      ggctcttgt gcttttggt ttaaactgc aaagctttc 
      gaagacgaa aattcaccc ttcagggtt tacggtcgg 
      aaagttttt gccacttca aaattacaa agattgaaa 
      cgaacaatt gcgacgatt tttccaact ctgggctat 
      cttttcaac atttccata actccgaaa gatataaca 
      aatttttat ctgaacgtg gttaaggac acagtcgag 
      tatagggaa aaaaataat tacaatcgg aacgatttt 
      atgcaattg ttgattgat ttgaagaac aacaaactt 
      gagggtgga acttcaaat ggaggtttc actttaaag 
      gaagtagcg gcccaaagt tttgttttt ttcttggct 
      ggttttgaa acgtcttca actttgatg acttttgcc 
      ttgtatgaa ttggccaga catcaggag attcaggat 
      atagttcga gaggaaatt aatgaagtt ttaagaaaa 
      cacaacgga aacgttact tatgactca attaatgac 
      atgaagtat ctgagtcaa gtgattgac gaaacatta 
      agattgtat ccaccggcg tccctagtg aatagaaaa 
      tgcatcaaa gactaccaa gttcctgac tgtgacctt 
      gtaatcgaa aaaggcaca actgttcta atcccaatt 
      atgggcatt cattacgac aaggattat tatcctgat 
      cctgaaaaa tttgatcct gaaagattt actgaagaa 
      aacaaaaat gcaagacac aattacgcc cacattccc 
      ttcggtgag gggcctcga atttgtata ggaatgcgt 
      tttggattg atgcaaacc aaagtaggt ttaagctgt 
      ttgctgaaa cattacaaa tttacggtt aataagaga 
      acacaagaa cccttgaaa atgcaacca agtccattg 
      attttaagt gcggaaggc gaaatttgg ctagacgct 
      gaaaaattg taa
    mRNA sequence
    • >TC010253 RA
      caacatcag tcatgctca ttaccactt ctttaaccg 
      gcgatttgc tcgccgtat ttttaacat tagtgttga 
      tcattgtca catattgta aatggagtt accagtatt 
      gggaacgca aacacttgc cctaccttg aaccgcaaa 
      tccctttcg gaaacgttg gagactcaa tcaaaggta 
      aaacaaatt ttggaatca cgattaaaa aaatttacg 
      aagagatga aacacaacg gatggaaac atgggggac 
      tttacgttt tcacagaac ctaattaca tggtccttg 
      atcttgaat acgtcaaga atataatga ccaaagact 
      ttcaatatt tcgtcgatc gttcaactt attataaca 
      aaaaagagg atccgttaa atgcacatt tgcttaatt 
      taggtggga caaagtggc gaaatttac gaactaaac 
      tcaccccca ctttcacat cggggaaaa tgaaaatga 
      tgtttcaga ctttggccg attgtcaaa ccggtcttc 
      tgaaaagga tggagaaag agagactta ctagacaac 
      caatcgata tcaaagaag ttctagcgt gtttcacca 
      ctgaaataa tcggctctt gtgcttttg gtttaaact 
      gcaaagctt tcgaagacg aaaattcac ccttcaggg 
      tttacggtc ggaaagttt ttgccactt caaaattac 
      aaagattga aacgaacaa ttgcgacga tttttccaa 
      ctctgggct atcttttca acatttcca taactccga 
      aagatataa caaattttt atctgaacg tggttaagg 
      acacagtcg agtataggg aaaaaaata attacaatc 
      ggaacgatt ttatgcaat tgttgattg atttgaaga 
      acaacaaac ttgagggtg gaacttcaa atggaggtt 
      tcactttaa aggaagtag cggcccaaa gttttgttt 
      ttttcttgg ctggttttg aaacgtctt caactttga 
      tgacttttg ccttgtatg aattggcca gacatcagg 
      agattcagg atatagttc gagaggaaa ttaatgaag 
      ttttaagaa aacacaacg gaaacgtta cttatgact 
      caattaatg acatgaagt atctgagtc aagtgattg 
      acgaaacat taagattgt atccaccgg cgtccctag 
      tgaatagaa aatgcatca aagactacc aagttcctg 
      actgtgacc ttgtaatcg aaaaaggca caactgttc 
      taatcccaa ttatgggca ttcattacg acaaggatt 
      attatcctg atcctgaaa aatttgatc ctgaaagat 
      ttactgaag aaaacaaaa atgcaagac acaattacg 
      cccacattc ccttcggtg aggggcctc gaatttgta 
      taggaatgc gttttggat tgatgcaaa ccaaagtag 
      gtttaagct gtttgctga aacattaca aatttacgg 
      ttaataaga gaacacaag aacccttga aaatgcaac 
      caagtccat tgattttaa gtgcggaag gcgaaattt 
      ggctagacg ctgaaaaat tgtaatagt ttttctaaa 
      taaatttgc tgttctgta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY