Status
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Gene information
General information
TC011671 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: 16181617..16183583
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
    TC011671
    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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    Publish name
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05076

    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)

    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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 1 (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


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011671 RA
      METPNESTS VKSTSVKSL NPLKKQVDF AKARPHLII 
      PSPQECNRY PHQFTATAE TAGLTPHPA YFKRQSVFI 
      FDQLHGIKD LTKSGLGFG EKCAFWLYN KLKQWSRKW 
      FTHTFLTLV LILYTIGGA FVFMAIEGA HENKQINES 
      KVQAIDVRA SRHRLIIDL RNLSLRMPL NSSDEEWTK 
      EAQELFERH KEVLIENEQ RKINKEKEE EKQWSFFNA 
      IVYCGTVYT SIGYGHIFP KTTSGKVIT IVYALIGLP 
      LFLIALTDF GKLFTRCIK FFWSFVRRL YYTGSCRRA 
      RKTAHVEDI FKGAQKMYE IATFRRPSA VVDPEHLTS 
      IQMETPVTP AISSFEIDD EFNLPISLA IFILVVYIF 
      LGAVIYSVW ENWEFFDAF YFVFISMTT IGFGDLVPK 
      DPACMIVSI AYLVFGLAL MSMCINVVQ VKLSDTFKQ 
      ASNKIGATI GITVAEDDG SVITVPPQN VELPQVHEN 
      TLSVIKQES SEITNSI
    CDS sequence
    • >TC011671 RA
      atggaaact cccaatgaa tcgacttct gtcaaatca 
      acatcagta aaaagttta aatcccttg aagaagcaa 
      gttgatttt gcaaaagcg agaccacat ttaataata 
      ccgtctcct caagaatgc aacagatat cctcatcag 
      tttactgca actgcagaa actgctggc cttacacca 
      catcctgct tatttcaag agacagtcg gtttttatt 
      ttcgatcag ttgcacggt attaaagat ttgaccaaa 
      tcaggctta ggtttcggc gaaaagtgt gcgttctgg 
      ctatacaac aaactaaaa caatggagt agaaagtgg 
      tttacgcat acattttta actctggtg ttgatttta 
      tatacgatc ggtggtgct tttgttttt atggcaatc 
      gaaggcgcc cacgaaaac aaacaaatt aacgaaagt 
      aaagttcaa gccattgat gtgagagct tccagacac 
      agattgatt atagatttg agaaacttg tctctacga 
      atgccttta aattcatct gatgaggaa tggactaaa 
      gaagcacaa gagctcttc gagcgtcac aaggaagtg 
      ctgattgaa aatgaacag agaaaaatt aataaagaa 
      aaggaagag gaaaaacag tggtcattt tttaatgca 
      attgtttat tgcggtacc gtgtacact agcataggt 
      tacggtcac atttttcca aaaaccacg tctggcaaa 
      gttattaca attgtttat gcacttatt ggacttccc 
      ctttttctt attgcacta acggacttt ggtaagctt 
      ttcacacgt tgtataaaa tttttttgg tcatttgtt 
      cgccgattg tactatact ggaagctgt cgaagagct 
      cgtaaaact gctcatgtt gaagatata tttaaaggt 
      gctcaaaaa atgtacgaa atagcaact tttcgtcgt 
      ccttcagct gtcgttgat ccagaacat ttgacatct 
      atccagatg gaaactcct gtcacacca gcaatatct 
      agttttgaa attgatgat gaatttaat ttgccaata 
      tctttggct atttttatt cttgttgtc tatattttt 
      cttggtgct gtaatttat tctgtttgg gaaaactgg 
      gagtttttt gatgctttc tatttcgtt tttatatct 
      atgactact atagggttt ggcgatttg gtacctaaa 
      gatccagcc tgcatgatt gtttctatt gcctaccta 
      gttttcgga ttggcttta atgtctatg tgtataaat 
      gtggtacag gttaaatta agtgacaca tttaaacaa 
      gcttccaat aaaattgga gccacgatt ggtattaca 
      gttgccgaa gacgatgga agtgttata actgtaccg 
      ccgcaaaat gtcgaatta ccacaagta catgaaaat 
      actttaagt gtcataaag caggagtcg agtgaaata 
      acaaactca atttaa
    mRNA sequence
    • >TC011671 RA
      tcgcgtcag ttgtacgcc gaaaaacgt tctgttaaa 
      atgtgatag tgaacagaa aatgataaa atggaaact 
      cccaatgaa tcgacttct gtcaaatca acatcagta 
      aaaagttta aatcccttg aagaagcaa gttgatttt 
      gcaaaagcg agaccacat ttaataata ccgtctcct 
      caagaatgc aacagatat cctcatcag tttactgca 
      actgcagaa actgctggc cttacacca catcctgct 
      tatttcaag agacagtcg gtttttatt ttcgatcag 
      ttgcacggt attaaagat ttgaccaaa tcaggctta 
      ggtttcggc gaaaagtgt gcgttctgg ctatacaac 
      aaactaaaa caatggagt agaaagtgg tttacgcat 
      acattttta actctggtg ttgatttta tatacgatc 
      ggtggtgct tttgttttt atggcaatc gaaggcgcc 
      cacgaaaac aaacaaatt aacgaaagt aaagttcaa 
      gccattgat gtgagagct tccagacac agattgatt 
      atagatttg agaaacttg tctctacga atgccttta 
      aattcatct gatgaggaa tggactaaa gaagcacaa 
      gagctcttc gagcgtcac aaggaagtg ctgattgaa 
      aatgaacag agaaaaatt aataaagaa aaggaagag 
      gaaaaacag tggtcattt tttaatgca attgtttat 
      tgcggtacc gtgtacact agcataggt tacggtcac 
      atttttcca aaaaccacg tctggcaaa gttattaca 
      attgtttat gcacttatt ggacttccc ctttttctt 
      attgcacta acggacttt ggtaagctt ttcacacgt 
      tgtataaaa tttttttgg tcatttgtt cgccgattg 
      tactatact ggaagctgt cgaagagct cgtaaaact 
      gctcatgtt gaagatata tttaaaggt gctcaaaaa 
      atgtacgaa atagcaact tttcgtcgt ccttcagct 
      gtcgttgat ccagaacat ttgacatct atccagatg 
      gaaactcct gtcacacca gcaatatct agttttgaa 
      attgatgat gaatttaat ttgccaata tctttggct 
      atttttatt cttgttgtc tatattttt cttggtgct 
      gtaatttat tctgtttgg gaaaactgg gagtttttt 
      gatgctttc tatttcgtt tttatatct atgactact 
      atagggttt ggcgatttg gtacctaaa gatccagcc 
      tgcatgatt gtttctatt gcctaccta gttttcgga 
      ttggcttta atgtctatg tgtataaat gtggtacag 
      gttaaatta agtgacaca tttaaacaa gcttccaat 
      aaaattgga gccacgatt ggtattaca gttgccgaa 
      gacgatgga agtgttata actgtaccg ccgcaaaat 
      gtcgaatta ccacaagta catgaaaat actttaagt 
      gtcataaag caggagtcg agtgaaata acaaactca 
      atttaatta agtagcaca aaaatacaa ctacacatt 
      ttttttgtg tttttttgt ttgaataat gtttttata 
      aataaaaat atttatttt at
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY