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Gene information
General information
TC009340 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: 579245..580824
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
    TC009340
    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_08610

    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: 60.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection


    Fertility
    vitellogenic egg chamber late size decreased - Number of animals showing the phenotype: 4

    vitellogenic egg chamber late amount increased - Number of animals showing the phenotype: 4
    previtellogenic egg chamber potentially amount increased - Number of animals showing the phenotype: 4

    mature egg not present - Number of animals showing the phenotype: 4
    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
    • >TC009340 RA
      MAEANLIKE GFLCPICHK DLRSPNNLI AHFQDLHSE 
      EQDILKSIK DLYGKAKKK ILKLDEQDL EVFKNEITL 
      EKYYLEISE PQEPGQIRS HTDYFKAVR RERLDHRTT 
      ETNKFIIRL DRLLRFYGS DRKQQEQEL VAWLDGSTV 
      TRCPSCASS FNITRRQHH CRLCGSIMC NACSYFLPY 
      ETAQAIVAP VHNVDVNNR EQVQGKEPD SLRICNHCL 
      DMLESRRRV QLEQMRQPI ICQLYNHLQ NLKSQTQSS 
      VDLYLKMYN SLTSGETTF QLQDTQSLR ASIAKKAES 
      IDILSKKIA SLPVDEETP KVELLQNSI RRGTSHYIK 
      DYLLTLPAP PSVQELERI KRERSLRNT EEENQLAVK 
      TNIKRVTVT TGWSPAAVS NENTETEDP LIEQMNIVR 
      NYIDQARKA QRFEEVASL QENLKMLKE TYKQQQLTR 
      DS
    CDS sequence
    • >TC009340 RA
      atggctgaa gcaaatttg ataaaagag ggcttcttg 
      tgccccatt tgccacaaa gacttgcgt tccccgaac 
      aatctaatt gcccacttc caagactta cattccgaa 
      gaacaagac atcctaaaa tccatcaaa gatttgtac 
      ggcaaagcc aagaaaaag atattaaaa cttgacgaa 
      caagacttg gaagttttc aaaaatgaa atcacctta 
      gaaaagtat tatttagag ataagtgag ccgcaagaa 
      cccggtcag atccggagt cacactgat tatttcaaa 
      gccgttcgt agagaacga ctcgatcat cgaaccacc 
      gaaactaat aaattcatt attaggttg gataggttg 
      ttgaggttc tatgggtcg gatcgtaaa cagcaagag 
      caggaattg gtggcttgg ttggatggt tccacagtg 
      acacgctgt ccttcatgt gcgtctagt tttaatatt 
      acaaggaga cagcaccat tgtaggtta tgtggaagc 
      attatgtgc aacgcgtgt tcctatttt ttgccatat 
      gagacggct caagcgata gttgccccc gttcacaac 
      gtggacgta aacaaccgg gagcaagtc caaggtaag 
      gaaccagac agcctccgt atttgcaac cattgcctc 
      gacatgctc gagagtcgc agacgcgtg caactcgaa 
      caaatgaga caaccaata atttgccaa ttgtacaac 
      cacctacaa aacctcaaa tcccaaacc cagagctcc 
      gttgatttg tatttaaaa atgtacaat tccctaacg 
      tccggtgag accacgttt caactgcaa gacactcaa 
      tctttaagg gcttcaatt gccaaaaaa gccgaatca 
      attgatatt ttgagtaaa aaaatcgca tccttacct 
      gtggacgaa gaaacgcct aaagtcgaa ctactacaa 
      aatagtata agacggggg acttctcat tacattaaa 
      gactattta ttaacacta ccagcgccc ccttctgtc 
      caagaactc gagagaatt aaacgcgaa cgctctctg 
      aggaacact gaagaggag aatcaattg gcagtcaaa 
      acgaacata aaaagagtg acagtgacc acaggttgg 
      tcacctgca gctgtgagt aatgaaaat accgaaact 
      gaggacccg ctaattgag caaatgaat attgtgcgg 
      aattatatt gaccaagca cggaaagcg caacgattt 
      gaagaagtg gcctcgctt caggagaat ttaaaaatg 
      ttgaaggag acatacaaa cagcaacaa ttgacgaga 
      gatagctaa
    mRNA sequence
    • >TC009340 RA
      tgtcaatta aacgtcagt ttgacatgt ttgtaaagc 
      gataatggc tgaagcaaa tttgataaa agagggctt 
      cttgtgccc catttgcca caaagactt gcgttcccc 
      gaacaatct aattgccca cttccaaga cttacattc 
      cgaagaaca agacatcct aaaatccat caaagattt 
      gtacggcaa agccaagaa aaagatatt aaaacttga 
      cgaacaaga cttggaagt tttcaaaaa tgaaatcac 
      cttagaaaa gtattattt agagataag tgagccgca 
      agaacccgg tcagatccg gagtcacac tgattattt 
      caaagccgt tcgtagaga acgactcga tcatcgaac 
      caccgaaac taataaatt cattattag gttggatag 
      gttgttgag gttctatgg gtcggatcg taaacagca 
      agagcagga attggtggc ttggttgga tggttccac 
      agtgacacg ctgtccttc atgtgcgtc tagttttaa 
      tattacaag gagacagca ccattgtag gttatgtgg 
      aagcattat gtgcaacgc gtgttccta ttttttgcc 
      atatgagac ggctcaagc gatagttgc ccccgttca 
      caacgtgga cgtaaacaa ccgggagca agtccaagg 
      taaggaacc agacagcct ccgtatttg caaccattg 
      cctcgacat gctcgagag tcgcagacg cgtgcaact 
      cgaacaaat gagacaacc aataatttg ccaattgta 
      caaccacct acaaaacct caaatccca aacccagag 
      ctccgttga tttgtattt aaaaatgta caattccct 
      aacgtccgg tgagaccac gtttcaact gcaagacac 
      tcaatcttt aagggcttc aattgccaa aaaagccga 
      atcaattga tattttgag taaaaaaat cgcatcctt 
      acctgtgga cgaagaaac gcctaaagt cgaactact 
      acaaaatag tataagacg ggggacttc tcattacat 
      taaagacta tttattaac actaccagc gcccccttc 
      tgtccaaga actcgagag aattaaacg cgaacgctc 
      tctgaggaa cactgaaga ggagaatca attggcagt 
      caaaacgaa cataaaaag agtgacagt gaccacagg 
      ttggtcacc tgcagctgt gagtaatga aaataccga 
      aactgagga cccgctaat tgagcaaat gaatattgt 
      gcggaatta tattgacca agcacggaa agcgcaacg 
      atttgaaga agtggcctc gcttcagga gaatttaaa 
      aatgttgaa ggagacata caaacagca acaattgac 
      gagagatag ctaaataaa ttaacccat tttttggaa 
      cttggtgct gaacaaata tgaaatact ataattatt 
      tattaactg catgttcac tagtcacac tattgcact 
      gtttctatt attatttac caaaatata tttttattt 
      gtatg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY