Status
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Gene information
General information
TC011609 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: 15289244..15291290
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
    TC011609
    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_05061

    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: 0.0% (includes death as pupa, adult)

    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): 30% - 50%
    abdomen partially remaining - Penetrance (percentage of animals/eggs on slide): less than 30%

    head not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 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: 20.0% (includes death as larva, prepupa, pupa, adult)

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (41 dpi)
    Days post injection


    Fertility
    fertility after larval injection decreased (no living offspring) -
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011609 RA
      MGCVSSKPD INDQHPNIF DVSNVNDQG DLVSPGKLE 
      VRETELVLH QRGKNPTVW PLRSLRKYG FDSEIFSFE 
      CGRRCPTGQ GIYAFRCRK AEQLFNIVQ HHIVRNSDE 
      NPLINAISD FPAVSTGPP VQRRAPSQP EGYLNPVGA 
      PRPSLSRPG SITSNGPVS PTTAESTHE HNNNKRGSL 
      GDHQYTNSS VITELEAPN YANLGAAAP EGCGEELRP 
      LVESPCHLY MNVDTVGTK DSDPSEDNA RHCYANIDT 
      KDLEHLRPL LSGAEAPSV PQTPTALYL TVHEVNYAE 
      LDLDPVKSD VSTSQVTPE SPHKAKSYA TIDFQKTNA 
      LSQSINPPM EVEEGSRKT RHNSTISDV TTRHSNSLS 
      D
    CDS sequence
    • >TC011609 RA
      atgggttgt gttagcagc aagcccgac ataaacgat 
      caacacccg aacattttc gacgtatcc aacgtcaac 
      gaccaaggc gacttggtg agccccggc aagctcgaa 
      gtccgggaa actgaacta gtcctacac caaagaggc 
      aaaaacccc acagtgtgg cccctcagg tcgctgcgc 
      aagtacggc ttcgactcg gaaattttc agtttcgag 
      tgcggtcgc aggtgcccc actggccaa ggcatttat 
      gcgtttagg tgccgcaag gctgagcaa cttttcaat 
      atcgtccaa catcacatt gtacgtaat tccgacgag 
      aaccccctt attaacgcc atttcggac tttccggcc 
      gtttccacg gggccccct gtgcagcga cgcgccccg 
      tcccagccc gagggctat ctcaatccg gtgggggcc 
      cccaggccg agtctgagc cgccctggg tccatcacc 
      agcaacggc ccggtgagc cccacgacg gccgagtcg 
      acgcacgaa cacaataat aataagagg ggcagtttg 
      ggggaccac cagtacacc aattccagt gttattact 
      gagttggag gctcccaat tatgccaac ttaggcgcc 
      gcagccccc gagggatgt ggggaggag ctgcgcccc 
      cttgtggag agtccgtgc cacctgtac atgaatgtg 
      gacaccgtt ggaaccaaa gactcggat ccttccgag 
      gacaacgca agacattgc tacgccaat atagacacc 
      aaagattta gaacattta aggccgctt ttgtcgggg 
      gcggaggcg ccaagtgtg ccccaaacg cccaccgcg 
      ctctatttg actgtccac gaagtgaat tacgctgag 
      ctggacttg gatccggtg aaaagcgac gtttctacc 
      tctcaagtg acgccagaa agcccccac aaagcgaaa 
      agttacgct acgattgat tttcaaaaa actaacgct 
      ctctcgcaa tcgataaat ccgccaatg gaggtcgaa 
      gaaggcagc agaaagact aggcataat tctacaatt 
      agtgatgtt acgactaga catagcaac tcgctaagt 
      gactaa
    mRNA sequence
    • >TC011609 RA
      ttttgttta aaaattttc agaaaggtt gttgggttg 
      tttacgcgt gttgttgtg ggtgttttg gggcccgtg 
      gggttgttg ccggtggtc aaatgaatt tattttcgc 
      attttttgt gtttggttg ccggcctgg tgacagaag 
      aaccatgat ggcgtcgct gtttattat gtgagaact 
      tcacataaa aattggtta aaaaacccc gaaaaactc 
      acaacaaaa tgtaaaaac agtaatttt tggtcagaa 
      tgcctgaaa agccacgtg tccatgcaa tcaagcttt 
      gagccaaac ctagtagaa aatgggttg tgttagcag 
      caagcccga cataaacga tcaacaccc gaacatttt 
      cgacgtatc caacgtcaa cgaccaagg cgacttggt 
      gagccccgg caagctcga agtccggga aactgaact 
      agtcctaca ccaaagagg caaaaaccc cacagtgtg 
      gcccctcag gtcgctgcg caagtacgg cttcgactc 
      ggaaatttt cagtttcga gtgcggtcg caggtgccc 
      cactggcca aggcattta tgcgtttag gtgccgcaa 
      ggctgagca acttttcaa tatcgtcca acatcacat 
      tgtacgtaa ttccgacga gaaccccct tattaacgc 
      catttcgga ctttccggc cgtttccac ggggccccc 
      tgtgcagcg acgcgcccc gtcccagcc cgagggcta 
      tctcaatcc ggtgggggc ccccaggcc gagtctgag 
      ccgccctgg gtccatcac cagcaacgg cccggtgag 
      ccccacgac ggccgagtc gacgcacga acacaataa 
      taataagag gggcagttt gggggacca ccagtacac 
      caattccag tgttattac tgagttgga ggctcccaa 
      ttatgccaa cttaggcgc cgcagcccc cgagggatg 
      tggggagga gctgcgccc ccttgtgga gagtccgtg 
      ccacctgta catgaatgt ggacaccgt tggaaccaa 
      agactcgga tccttccga ggacaacgc aagacattg 
      ctacgccaa tatagacac caaagattt agaacattt 
      aaggccgct tttgtcggg ggcggaggc gccaagtgt 
      gccccaaac gcccaccgc gctctattt gactgtcca 
      cgaagtgaa ttacgctga gctggactt ggatccggt 
      gaaaagcga cgtttctac ctctcaagt gacgccaga 
      aagccccca caaagcgaa aagttacgc tacgattga 
      ttttcaaaa aactaacgc tctctcgca atcgataaa 
      tccgccaat ggaggtcga agaaggcag cagaaagac 
      taggcataa ttctacaat tagtgatgt tacgactag 
      acatagcaa ctcgctaag tgactaaca catcgaatt 
      gtaaaattt tgtgattct cattgagtt tttttttgt 
      ttgatgagg tgaccagta cgaaaattt tgttttttt 
      agtagagta gttggaaaa catcgattt tttggaatg 
      ggtcatctc gttaagtac ttgtgatta tctaccaaa 
      atgttaaac ttgccacct tttttttgt aaggataca 
      aatttacaa atgccaaag atatttgat agttgttaa 
      tggttttaa gtaatggaa atgaaaaat gacgtatta 
      ttttactat attatacat tgcgcaaaa agtaattaa 
      ttatagaac agttgaata tattatatt taattttta 
      ataaacgat attttacaa a
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY