Status
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Gene information
General information
TC009496 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: 270800..273734
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
    TC009496
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_08618

    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: 30.0% (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


    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 with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    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
    • >TC009496 RA
      MEHEIGDTI NCYLSLIEI LEQLESHFI NGGTKHYQL 
      VRQKLANCC QKIDIIITL ETNNADFLV SLFQQRHQL 
      TFLLEITEK LIQTEPTIN QPLDEIATK SIETPRVRG 
      LNEIIGLYE IKKTLKSLV ILPKTQPQL FKNRTICNS 
      ILLYGPPGT GKTRLAHAL AAEATATFY SISAGDVLS 
      PYVGQTEKT IKALFQHLK NGCEFSILF IDEIDAFCR 
      KRSGSEHEY TRRIKTELM CQLSGIENC KNFIIVCAT 
      NCPWDLDCA ILRRFQKRI YVPLPSQIE RLEFFKFFT 
      RNIHFEGSN GDWTTLLEK TEGFSGSDL NDLVQTALN 
      IPLKELEDT KIWKCSDDG FYEPVMGEQ DLSKVVCSE 
      LQDLPSNSI KERSVQMND FLIAADSVK STVSPNDVR 
      KYENFCGI
    CDS sequence
    • >TC009496 RA
      atggaacat gaaatcggt gatacaatt aattgttac 
      ttatcacta attgaaata ctcgaacaa ctggaatct 
      cactttata aatggaggg acaaaacat tatcaattg 
      gttcgtcaa aaactggca aattgttgc caaaaaatc 
      gacattatt atcacttta gaaacaaat aacgccgat 
      tttcttgtg tcgctgttt caacaaaga caccagctc 
      actttcctg cttgaaatc actgagaaa ctaattcag 
      acagaacca acaatcaat caaccactc gacgaaatc 
      gcaaccaaa agtatcgaa acaccaaga gttcgaggt 
      cttaatgaa ataatcggt ctctatgaa atcaaaaaa 
      accttgaaa tcgcttgtt atcctccca aaaacacag 
      ccccaatta tttaagaat cgtacgatt tgtaacagt 
      attttacta tatggcccc ccgggaacg gggaaaaca 
      cgcctcgcg cacgctctg gcggcggag gccaccgcc 
      actttttac tcgatttcg gctggggat gtcttatct 
      ccttacgtg ggacaaacg gaaaaaacg atcaaggct 
      ttattccaa catttgaaa aatggttgc gaattcagt 
      atacttttc attgacgaa attgatgcg ttttgtcgc 
      aaacgaagc ggcagtgaa catgaatac actagaagg 
      atcaagact gaactaatg tgccaatta tcgggcatt 
      gaaaactgc aagaacttt attatagtc tgtgctaca 
      aactgtccc tgggacctg gattgtgcc attttgaga 
      cgcttccag aagcgtatt tacgtgcct ttgcccagt 
      caaatcgaa cgattggag ttttttaaa ttttttaca 
      agaaatatt cattttgag ggcagtaat ggtgattgg 
      acaacacta cttgaaaaa accgagggt ttttctggt 
      tcggacttg aacgatttg gtccaaaca gccctaaat 
      atcccgctg aaagaattg gaagatacg aaaatttgg 
      aaatgcagt gatgatggt ttttatgaa ccagtgatg 
      ggagaacag gatttgtcc aaagtggtt tgttccgaa 
      ttgcaagac ttgccttca aattcgatc aaggaaaga 
      agtgttcaa atgaacgat tttctgata gctgcagat 
      tcagttaaa agcaccgtc agtcctaat gatgttaga 
      aaatatgaa aatttttgt gggatttag
    mRNA sequence
    • >TC009496 RA
      actgcatgc aaaaagcgg aattgtagc aaatgccca 
      ctggaaaca acactccaa tctcgaatt ttacaattg 
      aaaaactta tcaatcaac aaaaagtga agttttttg 
      aaaaacatg aaaaaggtt ggattttgc cacttacca 
      ctaagtgtt caaaatgtc agtttttat atgaaacgc 
      cacgtaagg gaattacct ttacactaa tttcgttca 
      cttaattta attgggtgt gacctaaat aatgtttag 
      tacgaaatc ttcaaccca cacgtcaaa aacacagca 
      gacatgtcc gatttgaaa tgacagaat gacatggcc 
      ggcaataca gttttctat aaagtattg ggagtttac 
      gcgcgccag gttgccgtt tcatttata ttttttcaa 
      atccaaaat cttcaaaaa tggaacatg aaatcggtg 
      atacaatta attgttact tatcactaa ttgaaatac 
      tcgaacaac tggaatctc actttataa atggaggga 
      caaaacatt atcaattgg ttcgtcaaa aactggcaa 
      attgttgcc aaaaaatcg acattatta tcactttag 
      aaacaaata acgccgatt ttcttgtgt cgctgtttc 
      aacaaagac accagctca ctttcctgc ttgaaatca 
      ctgagaaac taattcaga cagaaccaa caatcaatc 
      aaccactcg acgaaatcg caaccaaaa gtatcgaaa 
      caccaagag ttcgaggtc ttaatgaaa taatcggtc 
      tctatgaaa tcaaaaaaa ccttgaaat cgcttgtta 
      tcctcccaa aaacacagc cccaattat ttaagaatc 
      gtacgattt gtaacagta ttttactat atggccccc 
      cgggaacgg ggaaaacac gcctcgcgc acgctctgg 
      cggcggagg ccaccgcca ctttttact cgatttcgg 
      ctggggatg tcttatctc cttacgtgg gacaaacgg 
      aaaaaacga tcaaggctt tattccaac atttgaaaa 
      atggttgcg aattcagta tacttttca ttgacgaaa 
      ttgatgcgt tttgtcgca aacgaagcg gcagtgaac 
      atgaataca ctagaagga tcaagactg aactaatgt 
      gccaattat cgggcattg aaaactgca agaacttta 
      ttatagtct gtgctacaa actgtccct gggacctgg 
      attgtgcca ttttgagac gcttccaga agcgtattt 
      acgtgcctt tgcccagtc aaatcgaac gattggagt 
      tttttaaat tttttacaa gaaatattc attttgagg 
      gcagtaatg gtgattgga caacactac ttgaaaaaa 
      ccgagggtt tttctggtt cggacttga acgatttgg 
      tccaaacag ccctaaata tcccgctga aagaattgg 
      aagatacga aaatttgga aatgcagtg atgatggtt 
      tttatgaac cagtgatgg gagaacagg atttgtcca 
      aagtggttt gttccgaat tgcaagact tgccttcaa 
      attcgatca aggaaagaa gtgttcaaa tgaacgatt 
      ttctgatag ctgcagatt cagttaaaa gcaccgtca 
      gtcctaatg atgttagaa aatatgaaa atttttgtg 
      ggatttagg tgaaaacaa cagttaggt ttcttgttg 
      tttattgat cttaatttt cgtaactta tgcacactt 
      tgacaataa aaaatgtcg ctcatcgtt actcgctaa 
      ttttgaaaa ttttactgt gattttggg cgagaaaat 
      taaatttcc catttaatt ctctcacga aacaaaagg 
      aatgcgcat ttcacgtaa ttacacagc ctaaagaaa 
      atgttttct agaatcaaa attctagta taatcacag 
      aaaaatttt tggagtatg tttcatcaa ttttttaat 
      tgcgttcac aaatattaa cctacggct acactttta 
      taaagaaaa tgtttacat aatttcact tagaaaata 
      tttgattaa catattata tcttcactc aacctctct 
      tgtaactac aaaaataat actttgagc tattaatta 
      ttatacatc tacaaatag gcgaataat atggttgga 
      aatgtaaat gaaaatttg ggactttgt cgtgctctg 
      tgttggtgt attattaat gagcgcttc gttttacaa 
      aatcagtca taaaagaaa aaagtggct caattgtac 
      tttagtctc tcgttttat tacaacgca cctaagtaa 
      ttagattag caatacgac atcaacaag actaaattt 
      aaaggccct cagcttttc actttattc aacttaaca 
      caatctttg atttcggtt gtttgtcaa tatcaaatt 
      taagtatca caacgcgta ttcttcagt acgtaataa 
      gttactcca acaaagtaa tttttaaat tgactagtt 
      tagttaaaa aaaaaacta ttctctaat atttaggct 
      tacaaattt taaaaataa tttgttagt gaaataata 
      taatcaact ggtttttcc atctaccaa gtgatttag 
      taaaaaatt aacagaaaa aagatgtaa tggtgtcaa 
      gccgttact taggctttc taatcattt ttcgatttc 
      attaactgc ttttagatc tttttaaat aggcgtacg 
      taaaattac aaggccaac aacactcaa cataagcta 
      tattctgat ttaataaac actgtgcaa gccaatcaa 
      atttgtgct ttcctcaaa attattact ctatttaaa 
      ttactatgt tgtcttcct gttatcc
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY