Status
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Gene information
General information
TC009262 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: 2240438..2246355
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
    TC009262
    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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    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_01517

    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)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    Fertility
    ovary without detectable defects - Number of animals showing the phenotype: 1
    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: 70.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 90.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    pupal molt not fulfilled (died as L7 or prepupa) - Number of animals showing the phenotype: 6 (11 dpi)
    Days post injection



    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection


    Pupal morphology
    antenna orientation irregular - Number of animals showing the phenotype: 2

    antenna shortened - Number of animals showing the phenotype: 2

    wings shortened - Number of animals showing the phenotype: 2

    wings not closed - Number of animals showing the phenotype: 2
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009262 RA
      MSEKSSENG PENPDGKTP ATLPQGDVV QQKDARAPT 
      RNEPKPKSP ECEIPTKKR KTRRGKSKR RYPYQKNGR 
      KSAKVIKPE APYNSNQFL LEDHGNIEE LDENLKNAD 
      QHSTTSRTR DSSFSVDSE GEFYSSPDD EEQFLIKDF 
      VDQYESVQA ERLQSMSKD ELIQEYLML ESKLELLTK 
      RQRKREVTS TSSSVELQS EVERLTIEN EALKRENAA 
      LRSKTCSSD SEDSETDSN DSCSSTSSS SSSCCSAEA 
      PPSPVLDYS QTNGHSASV ETV
    CDS sequence
    • >TC009262 RA
      atgagtgaa aaatcgtcg gaaaacggg cctgaaaac 
      ccggatgga aaaacgcct gcaacgctt ccccaaggt 
      gacgtcgtt caacagaaa gatgcgcgc gcaccgacc 
      agaaacgaa cccaagccg aagtcgccc gaatgcgaa 
      atacccacc aagaagaga aaaacgaga cgcggaaaa 
      tccaaaagg aggtacccg taccagaag aacgggcgc 
      aagtccgcg aaagtgata aaaccagaa gccccctac 
      aacagcaac cagttcctg ttggaggac cacggcaac 
      atcgaggag ctggacgag aatttgaag aacgccgac 
      caacactcg acaacatcc cgaacacgg gactccagc 
      ttcagcgtg gactcagaa ggcgagttc tactcgtct 
      ccggacgac gaggagcag ttcctgatc aaggacttt 
      gtcgatcag tacgagagc gtccaggcg gaaagactg 
      caatcaatg tcgaaagac gaactcatc caggagtac 
      ctcatgctc gagagcaaa ctggagctg ctgacgaag 
      cggcaacgc aaaagagag gtcacctcc accagctcg 
      tcggtggag ctccagagc gaagttgaa agactgacg 
      atcgaaaac gaagcttta aaacgcgaa aacgccgcg 
      ttgcgtagt aagacttgc agttcggat tcggaagat 
      tccgagacg gattcgaac gactcgtgc tcgagcacg 
      agcagtagt agtagcagc tgttgctcg gccgaggcg 
      ccgccgagt cccgtgctc gactactcg cagactaat 
      ggccattca gcgagcgtt gaaaccgtc tga
    mRNA sequence
    • >TC009262 RA
      attttttcc tatcggcaa taaaataat tgtcataaa 
      atatcaatt ttcgcatta atttttgtc aaagtcgtc 
      aattcacct tctgtgaat ttcgaatat gaatgactg 
      tttagaaat ttctgacgt caagataaa ccatatcca 
      atttcaatg ttacaacca accgatgcc aacgaaata 
      cttgacttc acgcgccgc cactggcat ttaatcttc 
      aaatttgtt taattatcg cttaatttt agctatttt 
      tcgcttaat ttgagcaag taaaatcga tttaatgat 
      tgcgttaac gtcgacaat ttataaatc gggttacgt 
      aaaaaatgt tcgaataat cgatgagtt tatagacct 
      ttggatttg gaaattacc tcaaatttc aatttttga 
      tgtttagga atcgccaca aataatcaa caatgtgta 
      atttatgca aatgtgaag gaagtagaa atttctcgc 
      tcttctcta cctggagga aggtgtaaa atatttaaa 
      aaatgcaag ttattgcgt aagaccgaa tttaaataa 
      atatctaac cataaacac gtgataaga aagtggttg 
      caagagtag ggactgacc tacacaata aatttttaa 
      cgttacgta accggattt tcgaccgag cattccaag 
      gtcactgat aacccccat gttacgcca ctgccaatt 
      aatgaccat cgtggtaaa tgatatcga ttaacacaa 
      aatgcaaca aagaaatta aattcagct ttattttta 
      aaacataaa cacacaaaa ccggttgtg tgtcgagtt 
      gtttgaatg catcgcaag agataaatg tttgttttt 
      gttgggaaa aaggctgga acccaccga aagcttata 
      aataaaata actaaagat aaacaagcg attatgtta 
      tttttatcc catttttcc tcttcggag accttgcaa 
      cagtcgagt gaagaagca ctcactttc catcttcct 
      ttctcttct ccaacacac ccatcccca gcctttcac 
      atgcaaata cacccattt atgggcgcc ccaacaaac 
      tagaccaaa acccgctct ataaataaa tcaaaaatg 
      gaaaaaatg caatcaggg gcccccatc tcgccaatt 
      agcccagat aggaagtgg gctggtgtc agtcgctcc 
      tgtcatttc gcaaacaaa ggcccatcg ctgggctca 
      aatggccca caaatcgtc ccatggccc atctcccaa 
      tgggcgcat ttccctttt gtggtaaaa tgggctggg 
      cgccgtccc cccaccccc gggataaac aacgcggtg 
      gcgacacag cgccccagt tgggaaaca aacaaactg 
      tgcaacgag aaaatggcg ctttctgtc gagtcgagt 
      gcatttggt ggtgaggtc gcggcgaga gtgcttcca 
      gacaacagc cttgtttga gccgttcga tggtctaat 
      cgccccgaa acgaagcca aacggtgaa aatgagtga 
      aaaatcgtc ggaaaacgg gcctgaaaa cccggatgg 
      aaaaacgcc tgcaacgct tccccaagg tgacgtcgt 
      tcaacagaa agatgcgcg cgcaccgac cagaaacga 
      acccaagcc gaagtcgcc cgaatgcga aatacccac 
      caagaagag aaaaacgag acgcggaaa atccaaaag 
      gaggtaccc gtaccagaa gaacgggcg caagtccgc 
      gaaagtgat aaaaccaga agcccccta caacagcaa 
      ccagttcct gttggagga ccacggcaa catcgagga 
      gctggacga gaatttgaa gaacgccga ccaacactc 
      gacaacatc ccgaacacg ggactccag cttcagcgt 
      ggactcaga aggcgagtt ctactcgtc tccggacga 
      cgaggagca gttcctgat caaggactt tgtcgatca 
      gtacgagag cgtccaggc ggaaagact gcaatcaat 
      gtcgaaaga cgaactcat ccaggagta cctcatgct 
      cgagagcaa actggagct gctgacgaa gcggcaacg 
      caaaagaga ggtcacctc caccagctc gtcggtgga 
      gctccagag cgaagttga aagactgac gatcgaaaa 
      cgaagcttt aaaacgcga aaacgccgc gttgcgtag 
      taagacttg cagttcgga ttcggaaga ttccgagac 
      ggattcgaa cgactcgtg ctcgagcac gagcagtag 
      tagtagcag ctgttgctc ggccgaggc gccgccgag 
      tcccgtgct cgactactc gcagactaa tggccattc 
      agcgagcgt tgaaaccgt ctgaagtgg gctttcatt 
      tttgagttt tgagagttt taataccag tgttgtttc 
      attcctaaa ttttaaagg gctgttctc gattccagt 
      tttgttttc gttaggtgt agagacagt aagtgtaaa 
      gtgcttcga gcaggtttt tcgtttcgt ttttcgatt 
      atttatgga catgcatcg catcacaat agacactct 
      tatacattg tcctccata gttacttag tcggttttt 
      tctttcaaa tgttattag ttccacagg ttcggccat 
      ttttttgta ttatatcat tatttataa aagatgtac 
      gtttttata ttgaaattt gtagataag aaatctaga 
      tttaaatta ttgcataaa taataagtt aaaatgacg 
      cttacgacg tttgaattc tttctcttt taacctttg 
      ccgctgcta gggagagat attacaggg tgacacgca 
      ccctaaagt tcaaaatgc cca
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY