Status
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Gene information
General information
TC001575 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_007418.3: 3464122..3468306
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
    TC001575
    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
    {{ goGene }}
    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
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    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_03211

    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: < 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
    • >TC001575 RA
      MIFCGRSGK ALNNIPIDN CNEINNLHS RDNVLVFGC 
      VRSDFTGNM KITLNDVQK RYGNTSYVI LPIKDDFTD 
      DDRNSFIVG NRKLLVNNV GICPNCRAS IELIDLNTR 
      KKQTWYYNN ASVLSPKLF HFRATKSNL QLFKGHITG 
      FILKIWQWV ETNIPDRKL MRSESKRHA YYNSKNASF 
      VTNTVTERV VLITFNESN VHVINASLV EVTQLCVPF 
      YDDYICQPD LHGQENSVL VGDLDQDGS QELISYSSS 
      FVKREDVQD WMLISNITV IRLEAELPK LYEEK
    CDS sequence
    • >TC001575 RA
      atgattttt tgcggccgc tcgggcaaa gccctcaac 
      aacatcccg attgataat tgcaatgaa attaataat 
      ttacacagt agggacaat gtcctagtt tttggctgc 
      gtgcgctcg gacttcacc ggtaatatg aaaataact 
      ctcaatgat gtgcaaaaa cgatacggt aacacatcc 
      tatgtgatt ttgccaatc aaagacgat tttacggac 
      gacgaccgc aacagtttc atagtcgga aatcgcaaa 
      ttactggtc aataacgtc ggcatttgc ccgaattgt 
      cgcgcaagc atcgaacta atcgaccta aacacgcgc 
      aaaaagcag acgtggtat tacaacaac gcgtcggtt 
      ttgagcccc aagctgttc cattttcgg gcgaccaag 
      tccaatttg cagttgttt aagggacat ataactggg 
      tttattttg aaaatctgg cagtgggtg gagacgaat 
      attcccgac cggaagttg atgcggtcg gagtcgaaa 
      cgacacgct tattacaat tcgaaaaat gcctctttt 
      gtcacgaac acggtaacc gaaagggtg gtcttgatt 
      acgttcaat gagagtaac gttcatgtg attaatgcc 
      agtttggtc gaggtgacc cagttgtgt gtgccgttt 
      tacgacgat tatatttgt cagcctgac ttgcacggt 
      caggagaat tcggttctg gttggggat ttggaccaa 
      gacgggagt caggaattg attagctat tcgagtagt 
      tttgttaag agagaggat gtacaggac tggatgctt 
      atttcgaat atcacggtg attcggcta gaggccgag 
      ttgcccaaa ttgtacgaa gagaaataa
    mRNA sequence
    • >TC001575 RA
      ccaaataca aaaaactaa aatgatggc caacatttg 
      gccaatttc tccaattct attaatttt ttatgctcg 
      tgtaacaaa taatacagc catttattg tgccgtttt 
      ttgctgatt aatgacgat ttgttgcgg atcaagtgc 
      taaccttgg attttgaac cacggaaca attcacatg 
      ttttcgtaa tttttcccg atttcccgc aggtcgatc 
      tcattctgg cgatgctgc gcacgaggg tgttttgtg 
      atcagctgt ttgtgaaac aaatcaatt attttccac 
      atttgggaa agattttgt gatttctgc gtacaaatt 
      aagagtgct ggtgtcaca cagtttatg acataacac 
      cgaacccgt gcgtgcaat aaattaatc attaatcac 
      tgtcgatat tgggaggac aaggacaat ggcccactc 
      ctcgcaagg aatctactc gcctttgcc ccaatcgat 
      aagcgactc cgactcgga ggagctcca catggacgc 
      tgtgtgtcc aaactacgc aagcaaaac cgtacaaaa 
      cggcaatag cttcgacca caagcgcaa attcgccaa 
      caattcggc aaacttcat ccaactcgg tgatgactt 
      gctccacat taaacgcgg aactcccag aatgtccac 
      gctgcgcaa agcggcgtt catcctatc cataattct 
      ctgcttgtt gcccatcat cgtatttct cttcttcat 
      cccctgttc cgtctccca cacctgtcc catcagaac 
      caccaactg ggagaacaa gcaagagga tgtggagct 
      aaaaggcgc gatcaacct tgtgcaagg cataaacca 
      gaaccacct gaatcttgc gattttgtt ccaaggcga 
      cattcgctc cccgaagat acttaaaaa cggggcgat 
      ttccttcct ggggaacag cggaagcgt ggcttggta 
      tttttgaca ggaggttgt tccaatcaa gctggactg 
      ctctttgat cgatgttga cgataacgg aatcaatga 
      ctgcctgct tcttgacga gagaggtct gaaagccat 
      tgagacgat ttcggggca agggatttg gcacgcgca 
      cagtcacga agaacggac aacaatcaa ccacttgga 
      ttttccggt caaattgcc cgattacaa ctacgataa 
      cgtgaacga actcatcgc gatttacaa acggacgag 
      tctcatgat tttttgcgg ccgctcggg caaagccct 
      caacaacat cccgattga taattgcaa tgaaattaa 
      taatttaca cagtaggga caatgtcct agtttttgg 
      ctgcgtgcg ctcggactt caccggtaa tatgaaaat 
      aactctcaa tgatgtgca aaaacgata cggtaacac 
      atcctatgt gattttgcc aatcaaaga cgattttac 
      ggacgacga ccgcaacag tttcatagt cggaaatcg 
      caaattact ggtcaataa cgtcggcat ttgcccgaa 
      ttgtcgcgc aagcatcga actaatcga cctaaacac 
      gcgcaaaaa gcagacgtg gtattacaa caacgcgtc 
      ggttttgag ccccaagct gttccattt tcgggcgac 
      caagtccaa tttgcagtt gtttaaggg acatataac 
      tgggtttat tttgaaaat ctggcagtg ggtggagac 
      gaatattcc cgaccggaa gttgatgcg gtcggagtc 
      gaaacgaca cgcttatta caattcgaa aaatgcctc 
      ttttgtcac gaacacggt aaccgaaag ggtggtctt 
      gattacgtt caatgagag taacgttca tgtgattaa 
      tgccagttt ggtcgaggt gacccagtt gtgtgtgcc 
      gttttacga cgattatat ttgtcagcc tgacttgca 
      cggtcagga gaattcggt tctggttgg ggatttgga 
      ccaagacgg gagtcagga attgattag ctattcgag 
      tagttttgt taagagaga ggatgtaca ggactggat 
      gcttatttc gaatatcac ggtgattcg gctagaggc 
      cgagttgcc caaattgta cgaagagaa ataatgctc 
      ttactattt tgctaacct tttaaacca gctgattaa 
      tctcaacac caaacgttt ccttcttgt atttaacac 
      tggaggtgt atagcagcg tacttgtca cgttttact 
      gttatcatt gtgagacca tttacttgt acttgtctt 
      tgagaaact tttattaat gtaactaat ttatgtgcc 
      tgttgacac cgtttatca ttataaatg aatttctcc 
      gttaaaaaa atatttttg ttagtgtgt gtacataaa 
      gcaacaaaa tcatatcga ctttttatt tctacctaa 
      gccaattcc tctttttta ctaataatt ttttaataa 
      aaca
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY