Status
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Gene information
General information
TC006544 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_007423.3: 11294863..11296760
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
    TC006544
    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_06219

    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: 0.0% (includes death as pupa, adult)

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


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): more than 80%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%

    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: 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
    • >TC006544 RA
      MFFNKYLYF DNRVGKMFP YVLHDKETA AKKSQEETN 
      SPKQKSSKY LNVPSQNSP SPPESPKKP KRESIFEFK 
      SEAAKKVEL IAKSRDERR QKLAEEKSI RDQMGISEH 
      NNPYYEFAR MINEFKSSL EFHPLKDSD PVIENQITV 
      CVRKRPLNT REKNRNEVD VITVPTKNQ IIVHEPKHK 
      VDLTKYLDN QHFRFDYVF DETCTNETV YKFTAQPLV 
      KTIFEGGMA TCFAYGQTG AGKTHTMGG EFKGKQQNF 
      KNGIYALVA TDVFSFLNQ PSYKDKNLV VSASFFEIY 
      GKVAYDLLA KKQRLRVLE DGKQVVQVV GLTERMVGK 
      VDDIMDLIR KGSLERTSG QTSANSNSS RSHAVFQII 
      LRKAGGKQL EGKFSLIDL AGNERGADN SKSNKQTRL 
      EGADINKSL LALKECIRA LGKKGKHCP FRESILTKI 
      LRDSFIGEK SRTCMIALI SSSVGSVDH TLNTLRYAD 
      RVKELVAND FCEVNSGES EENENDLLA VEYNLLENS 
      KSVIDSCVY FHQKACQLY DNSKQAGYS KYEFAKNWK 
      NLLREMIDV QKVAYIKAS EFCEMLEDE D
    CDS sequence
    • >TC006544 RA
      atgttcttc aacaagtac ctatacttc gataacaga 
      gtcggaaaa atgttccct tatgtacta cacgacaag 
      gaaacggcc gctaaaaaa tcacaagaa gagaccaat 
      tccccgaaa caaaagtcc tcaaaatac ctcaatgta 
      ccgtcacaa aactcgccg agtcctcca gaatcacca 
      aagaaacca aaacgcgag tccattttc gagttcaag 
      tcagaagcg gcgaaaaaa gtcgaactt atcgcgaaa 
      agtcgggac gaaaggaga cagaaactg gccgaggag 
      aagtccatc agggaccag atgggaatt tcggagcac 
      aataatccc tactacgag ttcgccagg atgataaac 
      gagttcaaa agcagcctc gagtttcat cccttgaag 
      gactcggac ccagtcatt gaaaaccaa atcaccgtc 
      tgtgtgaga aaacggcct ctaaacact cgggaaaaa 
      aacaggaac gaagttgac gtcatcacc gttcccacc 
      aaaaaccag ataatcgtc cacgagccc aaacacaaa 
      gtggatctg accaaatac ttagacaac caacatttc 
      cgcttcgac tacgtcttt gacgaaact tgcactaac 
      gagacagtt tacaaattc acggcccag ccgctagtc 
      aagacaatt ttcgagggc ggaatggcc acgtgtttc 
      gcctacggc cagacaggc gctggaaaa acccacaca 
      atggggggc gagttcaaa ggcaagcaa cagaacttc 
      aaaaacgga atttatgcc ttggtggcg accgacgtt 
      ttcagtttc ctgaaccaa ccctcttac aaagacaag 
      aacttggtc gtttctgcc agctttttc gaaatctac 
      ggcaaagtg gcgtacgac cttctggcc aagaagcaa 
      cgtctgagg gtgctcgag gacggcaag caggtggtc 
      caagtggtg ggtttgacc gaacgcatg gtggggaaa 
      gtcgacgat atcatggac ttgatcagg aaagggagc 
      ttggagcgg acctcaggc caaacctcg gccaactcc 
      aactcctcc aggtcgcac gcagttttc caaatcatc 
      ctgaggaag gctggaggg aagcaactc gaagggaag 
      ttctccctg attgacttg gccgggaac gagcgcggg 
      gccgacaat tcaaaatcc aacaaacag actcggctc 
      gaaggggct gacattaac aagtcgctg ctggcgctt 
      aaagagtgc ataagggcg ttgggcaag aagggcaag 
      cactgcccg ttccgggag agcatcctg acgaagatc 
      ctgcgggac tccttcatc ggggagaag tcacggacg 
      tgcatgatc gcgctgatt tcgtcgtcg gtggggtcc 
      gtcgaccac acgttgaac acgctgagg tacgcggat 
      agggtgaag gagttggtg gcgaatgac ttttgtgaa 
      gttaattcc ggagagtcg gaggagaac gagaacgat 
      ctcttggcg gtggaatac aatttgctt gagaatagc 
      aaaagtgtg attgatagt tgcgtctat ttccaccaa 
      aaagcgtgc cagctgtac gataacagt aagcaagcg 
      ggctacagt aagtatgag tttgccaaa aattggaag 
      aatttgtta cgagagatg atcgatgtt cagaaagtt 
      gcctatatt aaggcgtcg gagttttgc gaaatgctt 
      gaagacgag gattaa
    mRNA sequence
    • >TC006544 RA
      caacaacaa aatgttctt caacaagta cctatactt 
      cgataacag agtcggaaa aatgttccc ttatgtact 
      acacgacaa ggaaacggc cgctaaaaa atcacaaga 
      agagaccaa ttccccgaa acaaaagtc ctcaaaata 
      cctcaatgt accgtcaca aaactcgcc gagtcctcc 
      agaatcacc aaagaaacc aaaacgcga gtccatttt 
      cgagttcaa gtcagaagc ggcgaaaaa agtcgaact 
      tatcgcgaa aagtcggga cgaaaggag acagaaact 
      ggccgagga gaagtccat cagggacca gatgggaat 
      ttcggagca caataatcc ctactacga gttcgccag 
      gatgataaa cgagttcaa aagcagcct cgagtttca 
      tcccttgaa ggactcgga cccagtcat tgaaaacca 
      aatcaccgt ctgtgtgag aaaacggcc tctaaacac 
      tcgggaaaa aaacaggaa cgaagttga cgtcatcac 
      cgttcccac caaaaacca gataatcgt ccacgagcc 
      caaacacaa agtggatct gaccaaata cttagacaa 
      ccaacattt ccgcttcga ctacgtctt tgacgaaac 
      ttgcactaa cgagacagt ttacaaatt cacggccca 
      gccgctagt caagacaat tttcgaggg cggaatggc 
      cacgtgttt cgcctacgg ccagacagg cgctggaaa 
      aacccacac aatgggggg cgagttcaa aggcaagca 
      acagaactt caaaaacgg aatttatgc cttggtggc 
      gaccgacgt tttcagttt cctgaacca accctctta 
      caaagacaa gaacttggt cgtttctgc cagcttttt 
      cgaaatcta cggcaaagt ggcgtacga ccttctggc 
      caagaagca acgtctgag ggtgctcga ggacggcaa 
      gcaggtggt ccaagtggt gggtttgac cgaacgcat 
      ggtggggaa agtcgacga tatcatgga cttgatcag 
      gaaagggag cttggagcg gacctcagg ccaaacctc 
      ggccaactc caactcctc caggtcgca cgcagtttt 
      ccaaatcat cctgaggaa ggctggagg gaagcaact 
      cgaagggaa gttctccct gattgactt ggccgggaa 
      cgagcgcgg ggccgacaa ttcaaaatc caacaaaca 
      gactcggct cgaaggggc tgacattaa caagtcgct 
      gctggcgct taaagagtg cataagggc gttgggcaa 
      gaagggcaa gcactgccc gttccggga gagcatcct 
      gacgaagat cctgcggga ctccttcat cggggagaa 
      gtcacggac gtgcatgat cgcgctgat ttcgtcgtc 
      ggtggggtc cgtcgacca cacgttgaa cacgctgag 
      gtacgcgga tagggtgaa ggagttggt ggcgaatga 
      cttttgtga agttaattc cggagagtc ggaggagaa 
      cgagaacga tctcttggc ggtggaata caatttgct 
      tgagaatag caaaagtgt gattgatag ttgcgtcta 
      tttccacca aaaagcgtg ccagctgta cgataacag 
      taagcaagc gggctacag taagtatga gtttgccaa 
      aaattggaa gaatttgtt acgagagat gatcgatgt 
      tcagaaagt tgcctatat taaggcgtc ggagttttg 
      cgaaatgct tgaagacga ggattaatt tgtatagtg 
      gcgataaat tttaataaa gcattgatt aaacc
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY