Status
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Gene information
General information
TC007892 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_007419.2: 2282402..2284239
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
    TC007892
    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_09314

    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 larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    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
    • >TC007892 RA
      MAAESDSSQ LLENFSKLE VKTAKRKSS VNNASNDTL 
      EYGLPLTEV YKLAFSFYK EKEGKAVHF SYEDKLQLV 
      AFSQQVLHG PLSEAINKL PPLGTLDVV GKDRRLAWQ 
      KLGKLSTDQ ARAGFVELL SRRCPLFSA YVEAHRREK 
      KEQERKAKE EEKRRLIEE EEKQKKEEE AKLIQEQLT 
      KEEAIKRQI QQALNEQTF DQFRKYAEQ QFPGDPEKQ 
      GALIRQLQD QHYIQYMQQ LQAAQRGEQ IKSVDEEKT 
      DPDWNNQSD EINLNESSS NSLIPASMW TRSGIDEFK 
      QTVAQAEGD GVVRVGHGE TVTVRVPTH PHGTRLFWE 
      FATDHYDIG FGVYFEFGT PTSDQVSVH VSESDDEDL 
      EDIEEEIYD EEAIQTGDL EAGSVAVNG ISKPLLTEI 
      VPVYRRDCQ SEVYAGSHQ YPGQGVYLL KFDNSYSLW 
      RSKTLYYRV YYTQ
    CDS sequence
    • >TC007892 RA
      atggctgcc gagagtgac agctcacaa cttttggaa 
      aatttctca aaattagaa gtaaaaacc gcaaaacgg 
      aaaagttcg gtaaataac gcatcgaat gatacccta 
      gaatatggc ctaccgttg accgaagtt tacaagctt 
      gccttcagt ttttacaaa gaaaaggaa ggcaaggcc 
      gttcatttt agttatgag gataaatta caactcgtc 
      gctttctcc cagcaagtc ctccacggt ccattatca 
      gaagccata aataaatta cctccatta ggaacacta 
      gacgttgta ggcaaagat aggcgatta gcgtggcaa 
      aaactagga aaattatca acagatcag gcaagagca 
      ggtttcgtg gaactgttg agtcggcgg tgccccctg 
      ttctccgcc tatgtcgag gcacacaga cgggaaaag 
      aaggagcaa gagagaaaa gcgaaagag gaagagaaa 
      cgtagactg attgaagaa gaggagaag caaaagaag 
      gaggaagaa gccaaacta atccaggaa cagttaact 
      aaagaagaa gcaatcaag aggcaaatc cagcaagct 
      ctgaacgaa caaactttc gaccaattt aggaaatat 
      gccgagcaa caatttccc ggcgatccc gaaaaacag 
      ggcgctctt attaggcaa ttgcaggat cagcactac 
      atccagtac atgcaacaa ttgcaagcg gcacaaagg 
      ggggagcaa ataaaaagc gtcgatgag gaaaagact 
      gatcccgat tggaacaat caaagtgac gaaataaat 
      ttaaacgaa tcttcctca aatagttta atcccggcc 
      agtatgtgg acgcgttct ggcatcgac gaattcaag 
      cagactgtg gctcaggcc gagggtgat ggggttgtg 
      agagtaggc catggcgag actgttact gttagggtc 
      cccacacat ccgcatggg acgagactt ttttgggag 
      tttgccacg gatcattac gatatcggt tttggggtt 
      tatttcgaa tttgggact cccacaagt gaccaagtt 
      tcggtccac gtctctgaa agcgatgac gaagacttg 
      gaagacata gaggaagag atttacgat gaagaagcg 
      atacaaact ggcgacttg gaggccggc tctgttgct 
      gttaatggc atttctaaa ccacttctc accgaaatc 
      gtgccagtt tataggagg gactgccag agtgaggtc 
      tatgcaggg tctcaccag tacccaggc cagggagtt 
      tatttactt aagtttgat aattcttat tcgttatgg 
      aggtctaaa actctctac tacagagtc tattacacg 
      caataa
    mRNA sequence
    • >TC007892 RA
      tgtgaggtt aaataattg tcaaaaaaa tggggatat 
      caccaaagt cacgcaaga aatccccaa aaaaattaa 
      catggctgc cgagagtga cagctcaca acttttgga 
      aaatttctc aaaattaga agtaaaaac cgcaaaacg 
      gaaaagttc ggtaaataa cgcatcgaa tgataccct 
      agaatatgg cctaccgtt gaccgaagt ttacaagct 
      tgccttcag tttttacaa agaaaagga aggcaaggc 
      cgttcattt tagttatga ggataaatt acaactcgt 
      cgctttctc ccagcaagt cctccacgg tccattatc 
      agaagccat aaataaatt acctccatt aggaacact 
      agacgttgt aggcaaaga taggcgatt agcgtggca 
      aaaactagg aaaattatc aacagatca ggcaagagc 
      aggtttcgt ggaactgtt gagtcggcg gtgccccct 
      gttctccgc ctatgtcga ggcacacag acgggaaaa 
      gaaggagca agagagaaa agcgaaaga ggaagagaa 
      acgtagact gattgaaga agaggagaa gcaaaagaa 
      ggaggaaga agccaaact aatccagga acagttaac 
      taaagaaga agcaatcaa gaggcaaat ccagcaagc 
      tctgaacga acaaacttt cgaccaatt taggaaata 
      tgccgagca acaatttcc cggcgatcc cgaaaaaca 
      gggcgctct tattaggca attgcagga tcagcacta 
      catccagta catgcaaca attgcaagc ggcacaaag 
      gggggagca aataaaaag cgtcgatga ggaaaagac 
      tgatcccga ttggaacaa tcaaagtga cgaaataaa 
      tttaaacga atcttcctc aaatagttt aatcccggc 
      cagtatgtg gacgcgttc tggcatcga cgaattcaa 
      gcagactgt ggctcaggc cgagggtga tggggttgt 
      gagagtagg ccatggcga gactgttac tgttagggt 
      ccccacaca tccgcatgg gacgagact tttttggga 
      gtttgccac ggatcatta cgatatcgg ttttggggt 
      ttatttcga atttgggac tcccacaag tgaccaagt 
      ttcggtcca cgtctctga aagcgatga cgaagactt 
      ggaagacat agaggaaga gatttacga tgaagaagc 
      gatacaaac tggcgactt ggaggccgg ctctgttgc 
      tgttaatgg catttctaa accacttct caccgaaat 
      cgtgccagt ttataggag ggactgcca gagtgaggt 
      ctatgcagg gtctcacca gtacccagg ccagggagt 
      ttatttact taagtttga taattctta ttcgttatg 
      gaggtctaa aactctcta ctacagagt ctattacac 
      gcaataatt aattatttc attatacag ttgttttgt 
      attcgtttt taagctttg attacgttt ctgatcaaa 
      gtggcctgg gactgaaag ttggtaacg aactatcaa 
      tgtcacaga ccactctgt ttaaaaatt taattaaaa 
      acatggctt atcgcttct cttgaaaca agctgacgg 
      tttttttgg tttttcatt gaactattc ttctagtct 
      gagcgcaaa aagtattgt aagaaagtc tgtggtacc 
      cattgaata ataaaatat ttgtgcaat t
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY