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Gene information
General information
TC011621 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_007424.3: 15590683..15596083
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
    TC011621
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_06535

    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: 3 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (9 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): 30% - 50%

    embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

    larval musculature 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%
    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: % (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
    • >TC011621 RA
      MTTQLLGKN CDGGHYTCS PPKDCCKQG CCFLLTPAV 
      HRPPAIPPA NFFNPLFLG HWYFWVAVT ATVAGILCA 
      CSLWRRHNQ GSFCCRDSG RDERASEPD SNGSCYAPP 
      QYSRCNSFH QPPPPYSEV TSKPDLYPL VISYNGDPV 
      IKNNNSSTG YLMVQYFRN FIVRPVGSL SATSTIDSL 
      SSSFICNAA NEANTIIPP PYSCMGSLE EVTTENNQS 
      VQSPEPPQI PQSASGDFL PTPSTHTNP PTPISISIR 
      DNPCFGQNA TNIVNNLNE TLPNLEPSK CQTNCDASP 
      YKKIKKPIL QRLPKDRSQ DSDEDHNFS DLLNLSVCV 
      PSSVVNLGA SIQSSHLQE LQYSVTNSM TGSDISSLA 
      NLGSPDSPP RATSPTLEM RELLDKIQQ LPQQKSPQP 
      PKTSRVKAK TLYMPLYEG PKKGLKGWL SRSAPNTPC 
      SNFAPSFPK KGSSQRSSR VVVGDGSPL LREYEEDAN 
      RDECL
    CDS sequence
    • >TC011621 RA
      atgactact caactttta ggtaaaaac tgcgatgga 
      ggccactat acgtgttcc ccgcctaaa gattgttgc 
      aaacaaggt tgttgcttc cttttaact cctgcagta 
      caccgtcct cctgccatc cctcctgcg aattttttc 
      aacccttta tttctgggt cactggtat ttttgggtc 
      gctgtgacg gcaactgtt gcaggaatt ctgtgtgct 
      tgctcgctg tggcggcga cataaccag gggagcttc 
      tgttgtagg gattcggga agggatgaa agggcttca 
      gagccggat tcgaatggc tcctgctat gcgccacct 
      cagtactcg aggtgtaat agctttcac cagccgcca 
      ccgccttat tcagaggtg acttcaaag ccagatttg 
      taccctttg gtaatcagt tacaatgga gatccggtg 
      atcaaaaat aataatagt tcaactggt tatttaatg 
      gtgcaatac tttagaaac tttatagta cgacctgtt 
      ggatcttta tcggccaca agcaccatc gattcacta 
      agttccagt tttatttgc aacgctgcg aatgaggcc 
      aacacaata atccctcct ccgtactct tgcatggga 
      agtctggag gaagtaact accgaaaat aatcaaagt 
      gttcagtcc cccgagcct ccccaaatc ccccaatca 
      gcctccggc gacttcctc ccaaccccc agcacccac 
      acgaacccc ccaaccccc atctcgata tcgataaga 
      gacaaccct tgcttcgga cagaacgca acgaacatt 
      gtaaataat ttaaacgaa acgttgcca aatctagaa 
      cctagcaaa tgccaaact aactgtgat gcttcgccc 
      tacaagaag ataaaaaaa ccgatactt caaagactc 
      ccgaaagac cgaagccag gactcggac gaagaccac 
      aacttctcc gacttgcta aacctctcc gtttgcgtt 
      cccagcagt gttgtcaac ctgggggct tcaatccaa 
      tccagccac ctccaggag ctccagtac agtgtcacc 
      aacagcatg accgggtcg gacatcagc agcttggcc 
      aatctgggg tccccagac tcgcccccg cgggccacc 
      agtcccacc ctggagatg agggaatta ctcgataaa 
      atccagcag cttccgcag cagaagagc ccccagccg 
      cctaagaca agccgcgtg aaggccaag acgctgtac 
      atgccgctg tacgaaggg cctaagaag ggcctaaaa 
      gggtggctg tcgcgctcc gcccccaac acgccctgc 
      agcaacttt gcgcccagt ttccccaag aagggctcc 
      agccagcgg agcagccgg gtggtggtg ggcgacggc 
      agccccctt ctgagggag tacgaggag gacgcaaac 
      agggacgag tgtttgtga
    mRNA sequence
    • >TC011621 RA
      aaaatttgt aaataaaaa agacgtttt ttcctcaaa 
      tcggtttac gatttaaaa agtaagcgg gaaaaggcc 
      gattacgta ggaactgct gaacgcaac tgcgggaaa 
      tttgaacat ctggtggaa acaagctcg tgttagggg 
      attttgccc aaacggcca cacttgtta ggttttaac 
      gggaacgcc cctcacaca agcgccaat ttcaaacac 
      tgactgatt taatgaagc caatagaaa atatttttc 
      acttttggc ttgtttact ggctttaat tggccacca 
      gttaattac acgtaatta atcgacgcc gagatgaaa 
      ccgacgcca atgcggaga gtagcgtcg cggcgctgc 
      ttcagtcac ccctccaca atggcgtcg gtgaaacaa 
      acgagcttc ggttgaatg acgaaattt cgcgatttc 
      tttaaatca ccgaagcga aaaatacgg cgaaaattg 
      tggattttc tatccaaaa tcaagcaaa ttgtcttcc 
      attcttcct gctgctggc ttctaggct ggagaaacg 
      tggagagaa agtgcaatg cgacactta tactatctt 
      gtgcgtctg gcaacttta ctattctcc cagtactta 
      tgactactc aacttttag gtaaaaact gcgatggag 
      gccactata cgtgttccc cgcctaaag attgttgca 
      aacaaggtt gttgcttcc ttttaactc ctgcagtac 
      accgtcctc ctgccatcc ctcctgcga attttttca 
      accctttat ttctgggtc actggtatt tttgggtcg 
      ctgtgacgg caactgttg caggaattc tgtgtgctt 
      gctcgctgt ggcggcgac ataaccagg ggagcttct 
      gttgtaggg attcgggaa gggatgaaa gggcttcag 
      agccggatt cgaatggct cctgctatg cgccacctc 
      agtactcga ggtgtaata gctttcacc agccgccac 
      cgccttatt cagaggtga cttcaaagc cagatttgt 
      accctttgg taatcagtt acaatggag atccggtga 
      tcaaaaata ataatagtt caactggtt atttaatgg 
      tgcaatact ttagaaact ttatagtac gacctgttg 
      gatctttat cggccacaa gcaccatcg attcactaa 
      gttccagtt ttatttgca acgctgcga atgaggcca 
      acacaataa tccctcctc cgtactctt gcatgggaa 
      gtctggagg aagtaacta ccgaaaata atcaaagtg 
      ttcagtccc ccgagcctc cccaaatcc cccaatcag 
      cctccggcg acttcctcc caaccccca gcacccaca 
      cgaaccccc caaccccca tctcgatat cgataagag 
      acaaccctt gcttcggac agaacgcaa cgaacattg 
      taaataatt taaacgaaa cgttgccaa atctagaac 
      ctagcaaat gccaaacta actgtgatg cttcgccct 
      acaagaaga taaaaaaac cgatacttc aaagactcc 
      cgaaagacc gaagccagg actcggacg aagaccaca 
      acttctccg acttgctaa acctctccg tttgcgttc 
      ccagcagtg ttgtcaacc tgggggctt caatccaat 
      ccagccacc tccaggagc tccagtaca gtgtcacca 
      acagcatga ccgggtcgg acatcagca gcttggcca 
      atctggggt ccccagact cgcccccgc gggccacca 
      gtcccaccc tggagatga gggaattac tcgataaaa 
      tccagcagc ttccgcagc agaagagcc cccagccgc 
      ctaagacaa gccgcgtga aggccaaga cgctgtaca 
      tgccgctgt acgaagggc ctaagaagg gcctaaaag 
      ggtggctgt cgcgctccg cccccaaca cgccctgca 
      gcaactttg cgcccagtt tccccaaga agggctcca 
      gccagcgga gcagccggg tggtggtgg gcgacggca 
      gcccccttc tgagggagt acgaggagg acgcaaaca 
      gggacgagt gtttgtgat tgcgctgtc caacaccaa 
      aattcgtgt tgagttgaa gaaaaccag tcaattgga 
      ttgaccctg ctcaagtta tttttatac actcattgg 
      gggtttcgg cacacgtat ttacaaaaa cgctaatta 
      gagtttgat taggcacaa gtgcttcaa gcctaggcc 
      taggtattg tttcggtac caattctct tcggttatg 
      gctctaaaa ttcgatatt tttgtaaaa attcgtgtt 
      caattacca ttattatta tgaatgttt gtagtgatt 
      ttctcggtg ttggatgtt aaaaacgat gattcattt 
      ttgcaaaag tgtacttat accgaggtt tggttcaaa 
      gtgtggtgg ataatgttg cttggtttt agatgcctt 
      ggcgatatt tttcatacc taccgactt acaaaaata 
      aatgctttt gactagttg gctggacta aacaagggt 
      gaaacaatc aaaactagg ggacagtct actagaaag 
      ttggtttcg ttttttcac attttcgtt gtcctgaat 
      tgcattaaa cttgaatgt ttatctaca gttttattc 
      gaaacagca acttgaaat gtaataaaa tggtgacta 
      ataa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY