Status
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Gene information
General information
TC012166 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_007424.3: 3988191..3992000
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
    TC012166
    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_05184

    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 (with pupal and adult features) - Number of animals showing the phenotype: 3 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    Fertility
    vitellogenic egg chamber sometimes rounded - Number of animals showing the phenotype: 4

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 20 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%
    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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 50.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection


    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 1 (22 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 2 (22 dpi)
    Days post injection


    Fertility
    egg production: number no/almost no eggs -
    egg chamber not present - Number of animals showing the phenotype: 3

    tropharium size shortened - Number of animals showing the phenotype: 3
    vitellarium not present - Number of animals showing the phenotype: 3
    tropharium shape irregular - Number of animals showing the phenotype: 3
    tropharium structure irregular - Number of animals showing the phenotype: 3
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC012166 RA
      MCNITNSDS DEQELNPEP GEVELTNRV FDVNSEEFP 
      VLGDLDEDA HTWSNNLSD DLDVGNISN FFHRVSSEQ 
      VIYQAKKRL KMIGKYVMG DLLGEGSYG KVKEMLDSD 
      TLCRRAVKI LKQRKLRRI PNGVQNVER EIKLLKSLK 
      HKNVISLVD VLFNEEKQK MYLIMEFCV GSLQGMLES 
      TPYKKFPLY QAHGYFIQL IDGLEYLHS KRVVHKDIK 
      PGNLLLTLE GELKISDLG VAETIDFFA IDDTCVQGQ 
      GSPAFQPPE IANGLDSFP GFKVDVWSS GVSLYNFVT 
      GEYPFEGDS IYKLFENIG KGEFTIPDY IEDPLRDLL 
      LGMLRKDPE ERLSLQQIR QHMWFSRRP PVTAPPVPI 
      PPLRNDEFH CMTVLPYLF DHYYDTSDT ANNVEYFTE 
      RELNEEITK REAEQNNGS AQTNQSSKR RWKKPISCI 
      AVRKIPGCK QS
    CDS sequence
    • >TC012166 RA
      atgtgcaac ataaccaac agtgacagt gacgagcag 
      gagctgaat cccgagccc ggggaagtg gagctaacc 
      aaccgcgtt ttcgacgtt aacagcgag gagttcccg 
      gtgctgggg gacctggac gaggacgcg cacacctgg 
      agcaacaac ctgtcggac gacctggac gtgggcaac 
      atcagcaac tttttccac cgcgtgtcc tccgagcag 
      gtcatctac caggccaag aagcgcctg aagatgatc 
      gggaagtac gtgatgggg gacctgctg ggcgagggc 
      tcgtacggc aaagtgaag gaaatgcta gactcggac 
      actttgtgc cggcgcgcg gtcaaaatt ttgaaacag 
      cgcaagctg aggaggata cctaacgga gtacaaaac 
      gtggaaaga gaaatcaaa ttacttaag tcgctcaaa 
      cacaagaac gttatcagt ctagtcgac gtgctgttc 
      aacgaggag aagcagaag atgtatctg atcatggag 
      ttctgcgtg ggcagcctc cagggcatg ctggagtcc 
      acgccttac aaaaaattc cccctgtac caggcccac 
      ggctacttc atccagttg atcgacggc ctggagtac 
      ctgcacagc aagagggtc gtccacaag gacatcaag 
      ccggggaac ctgctcctc acgttggag ggagagttg 
      aaaatctcg gacttaggc gtcgccgag acaatcgat 
      tttttcgca atagacgac acgtgtgtt caaggccaa 
      ggttcgccg gcttttcag ccccccgag atcgccaac 
      ggtttagat tcattccct ggtttcaaa gtggacgtt 
      tggagcagc ggtgtgtca ctatacaat ttcgtaacg 
      ggggaatac cctttcgaa ggtgatagt atttataaa 
      ttattcgaa aatataggg aaaggtgaa ttcacaata 
      ccggattat atcgaagat cccttgcgg gatttgttg 
      ctagggatg ttgaggaag gatcccgag gagaggctc 
      agtttgcaa caaattagg caacacatg tggttttcg 
      cgccgaccg cccgtcacc gcgccccct gtccccatc 
      ccgcccttg cgaaacgac gagtttcac tgtatgact 
      gttttacca tatcttttc gatcattat tacgacact 
      tcggacacg gcaaataac gtcgagtat ttcaccgaa 
      cgggagctt aacgaagaa attacgaaa cgcgaagct 
      gaacaaaat aacggaagt gctcaaacc aaccaaagt 
      tccaagcgt agatggaag aagcccatt tcgtgtatc 
      gcagttaga aaaatccct ggttgtaag caatcttga
    mRNA sequence
    • >TC012166 RA
      gccgggaaa tcacgtgtt ttcggcgca aaaaaatca 
      ctcgggtgt tggaaagga tgtgttaat tgattttgt 
      gcgtaaaat tcgtaaaat cggtgtttg tggccccgc 
      tccagcatt atgtaacag cgcagcgac agccgccaa 
      agtccctag gaacagctg ttggttgga caacaaaaa 
      tattgaaaa tgacatgag gtgcgagtg tctcaactg 
      atagaaagc gaagcaaaa ctgagagaa acccgctgt 
      cggctgtta attatggac aggaaaatg tgcaacata 
      accaacagt gacagtgac gagcaggag ctgaatccc 
      gagcccggg gaagtggag ctaaccaac cgcgttttc 
      gacgttaac agcgaggag ttcccggtg ctgggggac 
      ctggacgag gacgcgcac acctggagc aacaacctg 
      tcggacgac ctggacgtg ggcaacatc agcaacttt 
      ttccaccgc gtgtcctcc gagcaggtc atctaccag 
      gccaagaag cgcctgaag atgatcggg aagtacgtg 
      atgggggac ctgctgggc gagggctcg tacggcaaa 
      gtgaaggaa atgctagac tcggacact ttgtgccgg 
      cgcgcggtc aaaattttg aaacagcgc aagctgagg 
      aggatacct aacggagta caaaacgtg gaaagagaa 
      atcaaatta cttaagtcg ctcaaacac aagaacgtt 
      atcagtcta gtcgacgtg ctgttcaac gaggagaag 
      cagaagatg tatctgatc atggagttc tgcgtgggc 
      agcctccag ggcatgctg gagtccacg ccttacaaa 
      aaattcccc ctgtaccag gcccacggc tacttcatc 
      cagttgatc gacggcctg gagtacctg cacagcaag 
      agggtcgtc cacaaggac atcaagccg gggaacctg 
      ctcctcacg ttggaggga gagttgaaa atctcggac 
      ttaggcgtc gccgagaca atcgatttt ttcgcaata 
      gacgacacg tgtgttcaa ggccaaggt tcgccggct 
      tttcagccc cccgagatc gccaacggt ttagattca 
      ttccctggt ttcaaagtg gacgtttgg agcagcggt 
      gtgtcacta tacaatttc gtaacgggg gaataccct 
      ttcgaaggt gatagtatt tataaatta ttcgaaaat 
      atagggaaa ggtgaattc acaataccg gattatatc 
      gaagatccc ttgcgggat ttgttgcta gggatgttg 
      aggaaggat cccgaggag aggctcagt ttgcaacaa 
      attaggcaa cacatgtgg ttttcgcgc cgaccgccc 
      gtcaccgcg ccccctgtc cccatcccg cccttgcga 
      aacgacgag tttcactgt atgactgtt ttaccatat 
      cttttcgat cattattac gacacttcg gacacggca 
      aataacgtc gagtatttc accgaacgg gagcttaac 
      gaagaaatt acgaaacgc gaagctgaa caaaataac 
      ggaagtgct caaaccaac caaagttcc aagcgtaga 
      tggaagaag cccatttcg tgtatcgca gttagaaaa 
      atccctggt tgtaagcaa tcttgacaa aacttttgt 
      attattttt atttattgt tattaacat tttccgaaa 
      ttactgatc gcattaaat cgttgttgc attgtttac 
      aaatttata ttgttatag atgtttaaa tctcaaatg 
      ttttttatt tttgttgat gtctacaaa tagtgggtg 
      tttaatccg atcagtaat tcggttcga aacaccagt 
      ggaacagca tgagagtgc catatgtaa gttattgtg 
      agaaaaaat tgaagaaat aaataatta cgttaact
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY