Status
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Gene information
General information
TC001465 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_007416.3: 3919638..3928696
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
    TC001465
    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_03194

    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: 40.0% (includes death as pupa, adult)

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


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


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


    adult nutritional state potentially bad (cachectic) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    Fertility
    ovary without detectable defects - Number of animals showing the phenotype: 2
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 50 abdomen musculature lateral potentiallysize decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen musculature lateral distalpattern irregular - 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: < 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: % (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
    • >TC001465 RA
      MWLLHLIAI FYGKYRLHN KVSTLPPDE PCPGVSILK 
      PLMGVDSNL STNLETFFT MNYPVYELL FCIEDETDP 
      AIKVVNTLI EKYPKVAAH VFIGGSLVG VNPKINNMN 
      RAYEASIYD LILISDSGI RMKEDTLLD MVNHMDEKT 
      GLVHQLPFT CDRPGFAAT LEKIYFGTA QSRIYLTAD 
      FVRTNCHTG MSALMRKPV LEEQGGLKS FGCYLAEDF 
      FIAQSYIKK GWRTAISSQ PAMQNSGIC DIESFQARL 
      TRWAKLRVA MIPYVILLE PLSECMMIG ACTAWSVSV 
      LFQWDFCVF YLVHILIWF ICDWTLLCV VQNGSLPFN 
      KFHFVIGWL FRELSGPYL FINAVLDPP IKWRNRVFK 
      LAWGGVAQE LHPRIKC
    CDS sequence
    • >TC001465 RA
      atgtggctt ttacatctt atagcaata ttctatggc 
      aaatacagg ctgcataat aaagtgtca acccttccc 
      cctgacgag ccctgtccg ggagtttcg attctaaag 
      ccgcttatg ggtgtagat agcaattta tcaacaaat 
      ttagagacc ttttttacg atgaactac cctgtgtac 
      gagcttctc ttttgcata gaagatgaa accgatccc 
      gcgattaaa gtcgtaaac acgctgatt gaaaaatac 
      cccaaagtt gcagctcat gtgttcatt gggggctca 
      ctagtcggt gttaacccc aaaatcaac aacatgaac 
      cgggcgtac gaagccagc atctatgac ctgatactc 
      atatctgac agtgggata agaatgaaa gaagacact 
      ttattggac atggttaac cacatggac gagaagacg 
      ggattggtt catcagctt ccgttcacg tgtgacagg 
      cctggcttt gcggcaact ttagaaaag atatatttt 
      ggtacagca caatctagg atatactta actgctgat 
      ttcgtccgt acaaattgt cacactggg atgtcagcc 
      ctcatgcga aagcctgtt ctggaggaa caggggggt 
      ttgaagtcg tttggatgc tacctagcc gaggatttt 
      ttcatagca caatcgtac attaagaaa gggtggaga 
      actgcaata agcagccaa ccagcgatg caaaattcg 
      ggaatttgt gatattgag agtttccaa gcgcgcctc 
      acacggtgg gcgaagctg cgagtggca atgatcccg 
      tatgtgatc ctcttggag cctctctcc gagtgcatg 
      atgatcggc gcgtgcacg gcctggtcc gtgagcgtc 
      cttttccaa tgggacttt tgtgtgttt tacctagtg 
      catatttta atatggttt atctgtgat tggacccta 
      ttatgcgta gttcagaac ggttccttg ccttttaat 
      aaatttcat ttcgtaatt ggttggttg ttcagggag 
      ttgtcgggt ccctacttg ttcatcaac gctgtgctg 
      gaccccccc atcaaatgg cgcaatagg gtctttaag 
      ctggcttgg gggggcgtc gcccaggag ctgcatcct 
      aggataaag tgctaa
    mRNA sequence
    • >TC001465 RA
      agtgtttcg tttgtaaaa tagttagta acacgagtt 
      tgaatttat cattccaca gggaaaaat gcgtagctt 
      gaagttcgg gttcgaagc tgtctgtta tcgctcgtt 
      ttcacaaag gaacaatgt gataactga taagatagt 
      cggtggaag ttattggtc catgaatca cgactcgaa 
      aaaggctga atacacgcc ctattcgaa ttccaaagc 
      caaaattcg gcgtaacgc atgcgtttt tgttggggg 
      tggcgcggt gtagccaag tggtgaaaa tttcgcgcg 
      tttaaaggt ggtttccgg tgatatttt cgtcagttt 
      tggagtggt tgtggcagc agtggtggc gacaaagtt 
      gctacgcat gcctcagtg cttgtggtt tttgcgata 
      tagctactt aacttattt tagctattt ccaaaattg 
      cgttggtgg cggagaagc gctacgaca atgcgtgga 
      caggtcgcg tttcttcag ttataattg atagaatga 
      gtcgtgtcg tcagttgca atcgaaaaa gattaaaat 
      aaagcagtc taataatgg aacaacatg tgtaaaaca 
      ttgtgatat agagtaata ttaaattaa tgaccaaat 
      tttcaaatg tatggaatg gcgccaatg atttatcct 
      tcgtctgtg tttgcggta ttttttata atcttttgg 
      tttgctatg tggctttta catcttata gcaatattc 
      tatggcaaa tacaggctg cataataaa gtgtcaacc 
      cttccccct gacgagccc tgtccggga gtttcgatt 
      ctaaagccg cttatgggt gtagatagc aatttatca 
      acaaattta gagaccttt tttacgatg aactaccct 
      gtgtacgag cttctcttt tgcatagaa gatgaaacc 
      gatcccgcg attaaagtc gtaaacacg ctgattgaa 
      aaatacccc aaagttgca gctcatgtg ttcattggg 
      ggctcacta gtcggtgtt aaccccaaa atcaacaac 
      atgaaccgg gcgtacgaa gccagcatc tatgacctg 
      atactcata tctgacagt gggataaga atgaaagaa 
      gacacttta ttggacatg gttaaccac atggacgag 
      aagacggga ttggttcat cagcttccg ttcacgtgt 
      gacaggcct ggctttgcg gcaacttta gaaaagata 
      tattttggt acagcacaa tctaggata tacttaact 
      gctgatttc gtccgtaca aattgtcac actgggatg 
      tcagccctc atgcgaaag cctgttctg gaggaacag 
      gggggtttg aagtcgttt ggatgctac ctagccgag 
      gattttttc atagcacaa tcgtacatt aagaaaggg 
      tggagaact gcaataagc agccaacca gcgatgcaa 
      aattcggga atttgtgat attgagagt ttccaagcg 
      cgcctcaca cggtgggcg aagctgcga gtggcaatg 
      atcccgtat gtgatcctc ttggagcct ctctccgag 
      tgcatgatg atcggcgcg tgcacggcc tggtccgtg 
      agcgtcctt ttccaatgg gacttttgt gtgttttac 
      ctagtgcat attttaata tggtttatc tgtgattgg 
      accctatta tgcgtagtt cagaacggt tccttgcct 
      tttaataaa tttcatttc gtaattggt tggttgttc 
      agggagttg tcgggtccc tacttgttc atcaacgct 
      gtgctggac ccccccatc aaatggcgc aatagggtc 
      tttaagctg gcttggggg ggcgtcgcc caggagctg 
      catcctagg ataaagtgc taatttaaa caaatttat 
      tgtgttagt ccttgttaa tttataaac ccatcacat 
      ccccagtat ttcggttga gtggaccca ccatttaga 
      gcctcgtct tgtacttat caagtactt ctcgatcat 
      ttcattcat ttgttgctt taacaaaga ttgtaaatc 
      acaagatgt aaatataaa gcaatatat tgtgataaa 
      gatcatact tatgtaaat attgttgca tcaaacact 
      ggaaatatc cgaaagcga gtttcggaa aatcgatca 
      ccctgtact tatttgtta ttcgatcaa ttttgagtt 
      aagtgctaa atggtgggt tcgaacttg tggttcgat 
      tacgtcaca ttttcattc gaattcaat atacatatc 
      acaagtacc taatcatgt gttttcgca ttttgacca 
      ctgattgct actttcgct tcgagacgt ttggagtaa 
      catttagaa tttaattca agactgatc gcttgattg 
      tttaattta tgttcagtt ggccatttt gtattcatt 
      attttttaa tatattatt ttaatcaac
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY