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Gene information
General information
TC005026 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: 30644296..30649122
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
    TC005026
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00797

    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 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): 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%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    cuticle remnants with unidentifyable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    head capsule mostly not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    head not closed - Penetrance (percentage of animals/eggs on slide): less than 30%

    thorax segment sometimes not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax not closed - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen not closed - 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): 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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    pupal molt not fulfilled (died as prepupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 8 (16 dpi)
    Days post injection



    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005026 RA
      MVISMDRWR GKVAIVTGA SAGIGAAIV EQLVTEGLQ 
      VAGFARRSE RVQELAKKL QDKKGKLFA VKVDLTNEE 
      EIIKGFKWV TDNLGPVHI LVNNAGVIQ PTNLTEGDT 
      KMWKKILDT NVLGLSIAT REAVKIMNE KKIDGHIVH 
      INSVAGHTV PNIPNINMY PASKHAVTA LTETLRQEL 
      NHLGLKIKI TSVSPGAVD TEIVQANNF QMNPEMENL 
      MPEKLLMLK SEDIADAVL YALGTPPHV QVHELTIKP 
      VGEKF
    CDS sequence
    • >TC005026 RA
      atggttatt tcaatggac cgttggaga ggcaaagtg 
      gccatagtt acaggagca agcgctgga attggggcc 
      gcaattgtc gaacaacta gtcactgaa ggcttacaa 
      gtggcaggt ttcgcccgc cgttccgaa cgcgtccaa 
      gaactggcg aagaaactc caagacaaa aagggcaaa 
      cttttcgct gtgaaagtc gacctaacc aacgaagag 
      gaaattatc aagggtttc aaatgggtt acggacaac 
      ttaggccct gtccacatt cttgtaaac aatgctgga 
      gtcatccaa cccacaaat ctcacagaa ggtgacaca 
      aaaatgtgg aaaaaaatc ctagatacg aacgtcctc 
      ggtttgtct attgcgaca agagaagct gtgaaaata 
      atgaatgaa aagaaaatt gatggtcac attgttcac 
      atcaatagt gtggcaggt catacagtg cctaatatt 
      cccaatatt aatatgtat ccagcttcc aaacatgcc 
      gtaacagct ttgactgag accttgaga caagagttg 
      aatcatttg gggttgaag ataaaaatt acgagtgtt 
      agtcctggt gctgtagac acggagatt gttcaagct 
      aacaatttt cagatgaat cctgaaatg gaaaactta 
      atgccggaa aaactattg atgttgaaa agtgaggat 
      attgcagat gcggttttg tacgcctta gggacacca 
      cctcatgtt caagtgcac gaattaacc atcaagcct 
      gtgggagag aaattttga
    mRNA sequence
    • >TC005026 RA
      agcgtctgc ctacattat aaaccgtct gctaaggaa 
      acgctaatt cagtagctt ttcaaacgt tagaactac 
      tggtgaaat tttcatctc attcagtga atcatggtt 
      atttcaatg gaccgttgg agaggcaaa gtggccata 
      gttacagga gcaagcgct ggaattggg gccgcaatt 
      gtcgaacaa ctagtcact gaaggctta caagtggca 
      ggtttcgcc cgccgttcc gaacgcgtc caagaactg 
      gcgaagaaa ctccaagac aaaaagggc aaacttttc 
      gctgtgaaa gtcgaccta accaacgaa gaggaaatt 
      atcaagggt ttcaaatgg gttacggac aacttaggc 
      cctgtccac attcttgta aacaatgct ggagtcatc 
      caacccaca aatctcaca gaaggtgac acaaaaatg 
      tggaaaaaa atcctagat acgaacgtc ctcggtttg 
      tctattgcg acaagagaa gctgtgaaa ataatgaat 
      gaaaagaaa attgatggt cacattgtt cacatcaat 
      agtgtggca ggtcataca gtgcctaat attcccaat 
      attaatatg tatccagct tccaaacat gccgtaaca 
      gctttgact gagaccttg agacaagag ttgaatcat 
      ttggggttg aagataaaa attacgagt gttagtcct 
      ggtgctgta gacacggag attgttcaa gctaacaat 
      tttcagatg aatcctgaa atggaaaac ttaatgccg 
      gaaaaacta ttgatgttg aaaagtgag gatattgca 
      gatgcggtt ttgtacgcc ttagggaca ccacctcat 
      gttcaagtg cacgaatta accatcaag cctgtggga 
      gagaaattt tgaaatgta cattttgta ttattttgt 
      gtaacaatg taaccatga aaaatgtgt gcagtttgt 
      atttaataa actataaaa aaccgt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY