Status
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Gene information
General information
TC006020 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: 2918538..2920764
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
    TC006020
    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_04055

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (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 not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    larval musculature irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 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 total percentage of affected eggs/embryos/larvae on slide - 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006020 RA
      MSQEETLVK YTAIYRCSD DITNLKIRV KLRQVGDLT 
      GEDSDGWEQ KDFAWQQKC FSKSEREYY KDEKNCITD 
      LEKKYHSDV GESHTEAHF DLFSYTNDD DFALKQEVN 
      DNFRENCDE NGQGYDYGQ SLVAAVRNP IGHNYEFEV 
      MYIMADLGE YIDSTWLKQ EQVLCVVKY DRKYKILSI 
      NPDFTKSQP YLIRLEGAT IRKYHYFLE NVSAQMPEE 
      AHRREKELI RKINGHKTE LLKCLSFKL PAKNKLAVH 
      LFMELAWAQ YFEYGPIYV QYFIDLPSD WSPTDQSQL 
      QGVTQTCHV TGDEGLAHF GHVFDVTLE YNIEDLGKR 
      GIPKCPYIY FEVISKDTW SRYRTEGLT YKALPVAKP 
      GNYRFNLQC FRLIPDRIS GQLRRFFIG DCSSYGDLT 
      WVGLPKHYD GPVLNKYGT NTVGTGLIS VTVHVVHQS 
      QAFLDKYRE NSEENLEIF EKLNSSSLV KSVEQVLQA 
      FKRARKNKI AARKFL
    CDS sequence
    • >TC006020 RA
      atgagtcag gaggagact ttggtcaaa tacacggca 
      atttacagg tgctcggat gacatcacc aacttgaaa 
      ataagagtg aagttgcgc caagtgggg gatttaact 
      ggcgaggat tcggacggt tgggagcag aaagacttc 
      gcctggcaa cagaaatgc ttcagcaag tcagaaagg 
      gagtactac aaggacgaa aaaaactgt atcacagat 
      ctggagaaa aagtaccat tcggacgtc ggggaatca 
      cacactgag gcgcatttt gacctgttt tcgtacacc 
      aatgacgac gattttgcc ctcaaacag gaagttaat 
      gacaatttc cgcgaaaat tgcgacgaa aatggccag 
      gggtacgac tacggccag tcacttgtg gcagcagtg 
      cgaaatccc attggtcat aattacgag tttgaggtc 
      atgtacatc atggcggac ctcggcgaa tacatcgat 
      tcgacttgg ctcaagcag gaacaagtc ctgtgtgtc 
      gttaaatac gaccggaag tacaaaata ttatcaatt 
      aaccccgac tttaccaaa tcccagccg tatttaatc 
      cgacttgaa ggcgccaca attcgcaaa tatcactat 
      ttccttgag aacgtttcg gcccaaatg cctgaggaa 
      gcccaccgt cgcgaaaaa gaattaatc cgaaaaata 
      aatggccac aaaaccgag cttttgaaa tgtttgagt 
      ttcaaactt cccgccaaa aacaaactg gccgttcat 
      ttgttcatg gaactcgcg tgggcgcaa tatttcgag 
      tatggacca atctacgtc cagtatttc atcgacttg 
      ccgtcggat tggtccccg actgaccaa tcgcaactg 
      cagggcgtg acgcaaacg tgtcacgtg actggcgat 
      gagggtttg gcccatttc gggcacgtt ttcgacgtt 
      acgttagag tacaatatc gaggatttg ggcaaaagg 
      ggaatcccc aagtgccct tatatctac tttgaggtt 
      atttcgaag gacacttgg agtcggtat aggactgaa 
      gggctgact tataaggcc ttgcccgtt gccaagccg 
      gggaattac cggtttaac ctacaatgt ttccggtta 
      atccccgac cggatttcc ggtcagtta cgccggttt 
      tttattggc gattgttca agctatggt gacttgact 
      tgggtggga ttaccgaaa cattacgat gggcctgtt 
      ttaaataaa tatgggact aacacggtt ggtaccggt 
      ctgatcagc gtgaccgtt cacgtcgtc catcaaagc 
      caggcgttt ctggacaaa tacagagaa aattccgag 
      gaaaatttg gaaattttc gaaaaattg aactcgtca 
      agtttggtc aaaagcgtg gagcaggtg ctccaagcg 
      ttcaaaagg gcccgaaaa aacaagatt gcggcccgg 
      aaattttta taa
    mRNA sequence
    • >TC006020 RA
      aaatgagtc aggaggaga ctttggtca aatacacgg 
      caatttaca ggtgctcgg atgacatca ccaacttga 
      aaataagag tgaagttgc gccaagtgg gggatttaa 
      ctggcgagg attcggacg gttgggagc agaaagact 
      tcgcctggc aacagaaat gcttcagca agtcagaaa 
      gggagtact acaaggacg aaaaaaact gtatcacag 
      atctggaga aaaagtacc attcggacg tcggggaat 
      cacacactg aggcgcatt ttgacctgt tttcgtaca 
      ccaatgacg acgattttg ccctcaaac aggaagtta 
      atgacaatt tccgcgaaa attgcgacg aaaatggcc 
      aggggtacg actacggcc agtcacttg tggcagcag 
      tgcgaaatc ccattggtc ataattacg agtttgagg 
      tcatgtaca tcatggcgg acctcggcg aatacatcg 
      attcgactt ggctcaagc aggaacaag tcctgtgtg 
      tcgttaaat acgaccgga agtacaaaa tattatcaa 
      ttaaccccg actttacca aatcccagc cgtatttaa 
      tccgacttg aaggcgcca caattcgca aatatcact 
      atttccttg agaacgttt cggcccaaa tgcctgagg 
      aagcccacc gtcgcgaaa aagaattaa tccgaaaaa 
      taaatggcc acaaaaccg agcttttga aatgtttga 
      gtttcaaac ttcccgcca aaaacaaac tggccgttc 
      atttgttca tggaactcg cgtgggcgc aatatttcg 
      agtatggac caatctacg tccagtatt tcatcgact 
      tgccgtcgg attggtccc cgactgacc aatcgcaac 
      tgcagggcg tgacgcaaa cgtgtcacg tgactggcg 
      atgagggtt tggcccatt tcgggcacg ttttcgacg 
      ttacgttag agtacaata tcgaggatt tgggcaaaa 
      ggggaatcc ccaagtgcc cttatatct actttgagg 
      ttatttcga aggacactt ggagtcggt ataggactg 
      aagggctga cttataagg ccttgcccg ttgccaagc 
      cggggaatt accggttta acctacaat gtttccggt 
      taatccccg accggattt ccggtcagt tacgccggt 
      tttttattg gcgattgtt caagctatg gtgacttga 
      cttgggtgg gattaccga aacattacg atgggcctg 
      ttttaaata aatatggga ctaacacgg ttggtaccg 
      gtctgatca gcgtgaccg ttcacgtcg tccatcaaa 
      gccaggcgt ttctggaca aatacagag aaaattccg 
      aggaaaatt tggaaattt tcgaaaaat tgaactcgt 
      caagtttgg tcaaaagcg tggagcagg tgctccaag 
      cgttcaaaa gggcccgaa aaaacaaga ttgcggccc 
      ggaaatttt tataattgt tgttttatt ttgagaatc 
      aataaacgt ggcaacgcc gc
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY