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Gene information
General information
TC009834 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: 8826706..8828802
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
    TC009834
    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
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    Name
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    Email
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    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_04709

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009834 RA
      MESDIQNFF RGQTIFITG GTGFIGKVL IEKLLRVCY 
      DLKTIYIIV RPKKGVSPE ERFRKLFDF VCFEKMKKM 
      RPNFFEKIQ MIEGDCSQP NLGLSQQVR NILINEVTV 
      VVSAAADVR FDQKLRNAV NSNIRSVGE TLNLAKEIT 
      NLKALIYVS TAYWNPSPD CLHEKFYEP VIRAENLFR 
      LVDSLNDET LEVLTPELL KDKWPNVYT FSKSVAEDL 
      IKRQAKGLP LAIIRPGII ISSLEEPLP GWIDNLYGI 
      VGLGAGIIL GGIRSIYLK KLNPIHTVP CDYVVNCLL 
      AVTWHLSNN QKCLTNDPV PIYNFVPER PITAGDYAD 
      VAERMKWKS PSGKMFWFP SCSYTENYY YHKIRIFIF 
      HILLPYIVD IVLTFLGRK PIATREYRK INKLMDVTS 
      YFCCTRFQF DSRNVKNLW RSLNTLDRD LFTFDLSNI 
      EWNPYLENA IRYGNVFMF KETLDDMPR KKRKLYFLA 
      FLHYTFTAF VCYFIFKMF YSVFSMFL
    CDS sequence
    • >TC009834 RA
      atggagagt gacatacag aattttttc cgcggccag 
      acgattttc atcaccgga gggacggga tttatcggg 
      aaagttcta atcgagaag ttgctgcga gtatgttac 
      gacttgaaa accatctac attattgtg cgcccaaaa 
      aagggagtt tcacccgag gagagattt agaaagctt 
      ttcgacttt gtttgtttt gagaaaatg aaaaagatg 
      cggccaaac tttttcgaa aaaatccaa atgattgaa 
      ggagactgc tctcaaccg aacttgggt ttatcacaa 
      caagttcgc aatattttg attaacgaa gttactgtt 
      gttgtaagt gcggccgcc gacgtgcga tttgaccaa 
      aagcttcga aatgcagtt aacagtaat atcagaagt 
      gtgggtgag actttaaac ttggctaag gaaataacc 
      aacttgaag gcacttatt tacgtttca acggcgtac 
      tggaatccg tctccggac tgtcttcac gaaaagttt 
      tacgaacct gtgatacga gccgaaaat ttgtttcgt 
      ctcgttgac agtctcaac gacgaaact ctcgaagtt 
      cttacacca gaattattg aaggataag tggccaaat 
      gtttacacc tttagtaaa agtgttgct gaagacctt 
      atcaaaaga caagcaaag ggcctaccg ttggctata 
      atacgacct gggattatt atctcttca cttgaggag 
      cctctccct ggctggatt gacaacctc tatgggata 
      gtaggtcta ggggcgggg ataattcta ggtggaatt 
      aggagcata tatttgaaa aagttgaac ccaattcat 
      accgtgccg tgcgattac gttgtgaac tgcttactg 
      gcagtgacc tggcatttg tctaataac caaaaatgc 
      ctaacaaat gacccagtc ccaatttac aattttgta 
      ccagaacgg cctataaca gccggagat tatgccgac 
      gttgcagag agaatgaaa tggaagtca ccttcggga 
      aaaatgttt tggttcccg agctgctcg tacacagaa 
      aattattat taccacaag atacgtatt tttattttt 
      cacatactt ttgccgtac atcgtggat atcgttttg 
      acgttcttg gggagaaaa ccgatagcc actcgagag 
      tacagaaaa atcaacaaa ttaatggac gttacgtcg 
      tatttctgt tgcacacga tttcagttt gacagccgg 
      aatgttaaa aacttgtgg cgaagcttg aatactctt 
      gatagagac ttgttcaca ttcgattta agcaacatt 
      gagtggaac ccctatcta gaaaacgca ataagatac 
      ggaaatgtg ttcatgttt aaagagact ctagacgat 
      atgcccaga aaaaagagg aaactttac ttcttggct 
      tttcttcat tatacgttc actgctttt gtttgttat 
      tttattttc aaaatgttt tacagtgtc ttttcaatg 
      tttttataa
    mRNA sequence
    • >TC009834 RA
      gtgcccaaa catggagag tgacataca gaatttttt 
      ccgcggcca gacgatttt catcaccgg agggacggg 
      atttatcgg gaaagttct aatcgagaa gttgctgcg 
      agtatgtta cgacttgaa aaccatcta cattattgt 
      gcgcccaaa aaagggagt ttcacccga ggagagatt 
      tagaaagct tttcgactt tgtttgttt tgagaaaat 
      gaaaaagat gcggccaaa ctttttcga aaaaatcca 
      aatgattga aggagactg ctctcaacc gaacttggg 
      tttatcaca acaagttcg caatatttt gattaacga 
      agttactgt tgttgtaag tgcggccgc cgacgtgcg 
      atttgacca aaagcttcg aaatgcagt taacagtaa 
      tatcagaag tgtgggtga gactttaaa cttggctaa 
      ggaaataac caacttgaa ggcacttat ttacgtttc 
      aacggcgta ctggaatcc gtctccgga ctgtcttca 
      cgaaaagtt ttacgaacc tgtgatacg agccgaaaa 
      tttgtttcg tctcgttga cagtctcaa cgacgaaac 
      tctcgaagt tcttacacc agaattatt gaaggataa 
      gtggccaaa tgtttacac ctttagtaa aagtgttgc 
      tgaagacct tatcaaaag acaagcaaa gggcctacc 
      gttggctat aatacgacc tgggattat tatctcttc 
      acttgagga gcctctccc tggctggat tgacaacct 
      ctatgggat agtaggtct aggggcggg gataattct 
      aggtggaat taggagcat atatttgaa aaagttgaa 
      cccaattca taccgtgcc gtgcgatta cgttgtgaa 
      ctgcttact ggcagtgac ctggcattt gtctaataa 
      ccaaaaatg cctaacaaa tgacccagt cccaattta 
      caattttgt accagaacg gcctataac agccggaga 
      ttatgccga cgttgcaga gagaatgaa atggaagtc 
      accttcggg aaaaatgtt ttggttccc gagctgctc 
      gtacacaga aaattatta ttaccacaa gatacgtat 
      ttttatttt tcacatact tttgccgta catcgtgga 
      tatcgtttt gacgttctt ggggagaaa accgatagc 
      cactcgaga gtacagaaa aatcaacaa attaatgga 
      cgttacgtc gtatttctg ttgcacacg atttcagtt 
      tgacagccg gaatgttaa aaacttgtg gcgaagctt 
      gaatactct tgatagaga cttgttcac attcgattt 
      aagcaacat tgagtggaa cccctatct agaaaacgc 
      aataagata cggaaatgt gttcatgtt taaagagac 
      tctagacga tatgcccag aaaaaagag gaaacttta 
      cttcttggc ttttcttca ttatacgtt cactgcttt 
      tgtttgtta ttttatttt caaaatgtt ttacagtgt 
      cttttcaat gtttttata aaacaaatc aatcttttt 
      taccagaaa ttgtaatac aaaaaaatt taataaatt 
      aatttcttt gccgatttg ttcgtcttt gttgttgta 
      tcctgtaga cgaataatg gccggaaaa caagtcctt 
      cagccactt ccaagtcct ccaactctt cgtcgtgac 
      tcgttggaa acgccagaa caacattta ttaaaatta 
      caatcacag taataatct gcaaaagca cataaacaa 
      caattaaca atcgataaa gtacttacg gaaaacaaa 
      ttcattttt gacactcaa agtttcttg ttcgagaat 
      aaatcagtg actaattt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY