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Gene information
General information
TC013279 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: 6041481..6043185
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
    TC013279
    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
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    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05413

    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)

    pupa eclosion not fulfilled (died as pupa) - 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


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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: 22.22% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 33.33% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


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


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC013279 RA
      MVLNHFLFT LVITNLAAN AAKQCQTPN NFSGECVPI 
      ENCPLLNFF FENESQTPT RNDALYLNK SLCNFSDVD 
      DNPIVCCPM NTLLERTDC GISVEKKIY GGRITELDE 
      FPWMALLEK KKSDGSKEF VCGGALINN KYVLTAAHC 
      AVLKIVSVR LGEYNTKSD VDCIKQGIN NNDQDCAPP 
      PINVPIEEK IIHERYSIS NSLNKYHDI ALLKLKYAV 
      EFSDYIKPV CLPNFPEKS SYKGVNFTI AGWGETENK 
      TTSNVKLKV ELPLKSRLH CQNAFRIYN FKLELSEGQ 
      LCVGGEKGK DSCVGDSGG PLMNANRNK NNDLVWYVV 
      GIVSSGSNR CGLEAFPGI YTNVSHYVP WIISKIKP
    CDS sequence
    • >TC013279 RA
      atggtgtta aatcatttt ttgtttacg ttagttatc 
      acaaatttg gctgcaaat gctgctaaa cagtgtcaa 
      accccgaac aacttttcc ggcgaatgc gtcccaatt 
      gaaaactgc cctttactt aatttcttt ttcgaaaat 
      gaatcgcaa acacctaca cgaaatgat gctttgtat 
      ctgaataaa tctttatgt aatttttcg gatgtggat 
      gacaaccca atagtgtgc tgtcccatg aacacctta 
      ctagaaaga actgattgt ggtattagt gttgaaaaa 
      aagatatac gggggacga ataaccgag cttgatgaa 
      tttccttgg atggcatta ctagaaaag aaaaaatcg 
      gatggtagc aaagaattc gtctgtgga ggcgctttg 
      attaacaac aagtatgtt ttaaccgct gcacattgt 
      gctgttttg aagatagta agcgtccgt ttgggcgag 
      tacaataca aagagtgat gtggattgt ataaagcag 
      ggtataaat aataatgac caggattgt gcaccacca 
      ccaattaat gttcctatc gaagaaaaa attatccat 
      gagcgttat agcatttcc aatagtttg aacaaatac 
      cacgatatt gcattattg aaattaaaa tatgcagtg 
      gaattttca gattacata aaacctgtt tgtcttccg 
      aactttccc gagaaaagc tcttacaaa ggtgttaac 
      tttaccatc gccggttgg ggagaaacc gagaataaa 
      actacgagt aacgttaag ctaaaagtt gagcttcca 
      cttaaaagt cgattacac tgccaaaat gccttccgt 
      atttacaat tttaagtta gaattatct gaaggtcag 
      ttgtgcgta gggggggaa aagggcaaa gattcttgc 
      gtcggagac agtggaggg cctttgatg aatgccaac 
      agaaataag aataacgac ttggtgtgg tatgtggtc 
      ggaattgtg tcctctggg tccaacagg tgtgggttg 
      gaagctttt ccaggaata tacacaaat gtgtcacat 
      tatgtgcca tggataatt agcaaaata aaaccctaa
    mRNA sequence
    • >TC013279 RA
      gaataaaag caactcgca cacaattac agcgccata 
      ctacaatgg tgttaaatc attttttgt ttacgttag 
      ttatcacaa atttggctg caaatgctg ctaaacagt 
      gtcaaaccc cgaacaact tttccggcg aatgcgtcc 
      caattgaaa actgccctt tacttaatt tctttttcg 
      aaaatgaat cgcaaacac ctacacgaa atgatgctt 
      tgtatctga ataaatctt tatgtaatt tttcggatg 
      tggatgaca acccaatag tgtgctgtc ccatgaaca 
      ccttactag aaagaactg attgtggta ttagtgttg 
      aaaaaaaga tatacgggg gacgaataa ccgagcttg 
      atgaatttc cttggatgg cattactag aaaagaaaa 
      aatcggatg gtagcaaag aattcgtct gtggaggcg 
      ctttgatta acaacaagt atgttttaa ccgctgcac 
      attgtgctg ttttgaaga tagtaagcg tccgtttgg 
      gcgagtaca atacaaaga gtgatgtgg attgtataa 
      agcagggta taaataata atgaccagg attgtgcac 
      caccaccaa ttaatgttc ctatcgaag aaaaaatta 
      tccatgagc gttatagca tttccaata gtttgaaca 
      aataccacg atattgcat tattgaaat taaaatatg 
      cagtggaat tttcagatt acataaaac ctgtttgtc 
      ttccgaact ttcccgaga aaagctctt acaaaggtg 
      ttaacttta ccatcgccg gttggggag aaaccgaga 
      ataaaacta cgagtaacg ttaagctaa aagttgagc 
      ttccactta aaagtcgat tacactgcc aaaatgcct 
      tccgtattt acaatttta agttagaat tatctgaag 
      gtcagttgt gcgtagggg gggaaaagg gcaaagatt 
      cttgcgtcg gagacagtg gagggcctt tgatgaatg 
      ccaacagaa ataagaata acgacttgg tgtggtatg 
      tggtcggaa ttgtgtcct ctgggtcca acaggtgtg 
      ggttggaag cttttccag gaatataca caaatgtgt 
      cacattatg tgccatgga taattagca aaataaaac 
      cctaataaa atacagaag attacattt tcactttaa 
      tttcctgca aaattgaca ttatttatt ttttcagtt 
      tttaactcg aaaatctat atgtagcta ctgacatag 
      gatccttac cagttttta gatgtagtc tgtcgctag 
      ttcgttttg aaataccta ttcgtggta aaaattttc 
      acatagaac gattgaccg gaagttaac aatttgagc 
      gtccttgcc gttttaaat actagattt atgtcaatt 
      tgtgatcca aacaaaata tattagcac gaaaattat 
      agaagttta ttgtaaaaa aatgtgaaa ttaataaat 
      agatgatgt ttct
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY