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Gene information
General information
TC034617 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: 20039268..20042425
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
    TC034617
    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
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    Email
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    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00328

    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: 70.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


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


    Fertility
    vitellarium shortened - Number of animals showing the phenotype: 4
    egg chamber number decreased - Number of animals showing the phenotype: 4

    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: 20.0% (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: 2 (11 dpi)
    Days post injection


    pupation delayed (still prepupa) - Number of animals showing the phenotype: 8 (11 dpi)
    Days post injection


    pupal molt not fulfilled (died as prepupa) - Number of animals showing the phenotype: 8 (19 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC034617 RA
      MAGNFWQSS HHQQWLLDK QDLIRERQH DLQLLTEEE 
      YQKIFIFFA SVIQTLGEQ LKLRQQVIA TATVYFKRF 
      YAKNSLKCI DPLLLAPTC IFLASKVEE FGVISNSRL 
      ITTCQTVIK NKFSYAYSQ EFPYRTNHI LECEFYLLE 
      NLDCCLIVY QPYRPLLQL VQDMGQEDQ LLTLAWRIV 
      NDSLRTDVC LLYPPYQIA IGCLQIACV ILQKDHKAW 
      FAELNVDIE RIQEIARYV INLFELWKT YDEKKEIQG 
      LLNKMPKPK PAPQR
    CDS sequence
    • >TC034617 RA
      atggctgga aatttttgg caaagctca caccaccag 
      cagtggctt ttggacaaa caagattta attagggag 
      cgccaacat gatctccaa ctcctcacg gaggaggag 
      taccaaaaa atatttata ttttttgct agcgtcatt 
      caaacacta ggcgaacag ttgaagcta cgccagcaa 
      gttatagca accgcaacg gtttatttt aagaggttt 
      tatgcaaaa aactcactt aagtgcatc gatccgtta 
      ttgttagcc cccacttgc atttttcta gcctccaaa 
      gtagaagaa tttggggtg atttccaat tctaggtta 
      attacaacg tgtcagaca gtcattaaa aataagttt 
      agttacgcc tatagtcag gaatttcca tatcgtacg 
      aaccacatc ctagagtgt gaattctac ttgttagaa 
      aacctcgac tgttgcttg atcgtctat cagccttat 
      agacctctc ttacaacta gtgcaagac atgggtcaa 
      gaagatcaa cttttgact ctcgcctgg aggatagtg 
      aacgattct cttaggact gatgtgtgt ttgctttat 
      ccaccatat caaattgca attggctgt cttcaaata 
      gcttgtgtc atcttgcaa aaggaccac aaggcttgg 
      tttgccgaa ctgaacgtg gacatagaa cgaattcaa 
      gaaattgca agatacgtt attaattta ttcgagctg 
      tggaagact tacgacgag aagaaagaa attcaagga 
      ctgttgaat aaaatgcct aaaccaaaa cctgcccct 
      caaagatag
    mRNA sequence
    • >TC034617 RA
      cttttgtgt taattaata attgactgg aagcttaaa 
      gttattgcc tgtgattta attcaactc agattagtt 
      tgtgcaatg gctggaaat ttttggcaa agctcacac 
      caccagcag tggcttttg gacaaacaa gatttaatt 
      agggagcgc caacatgat ctccaactc ctcacggag 
      gaggagtac caaaaaata tttatattt tttgctagc 
      gtcattcaa acactaggc gaacagttg aagctacgc 
      cagcaagtt atagcaacc gcaacggtt tattttaag 
      aggttttat gcaaaaaac tcacttaag tgcatcgat 
      ccgttattg ttagccccc acttgcatt tttctagcc 
      tccaaagta gaagaattt ggggtgatt tccaattct 
      aggttaatt acaacgtgt cagacagtc attaaaaat 
      aagtttagt tacgcctat agtcaggaa tttccatat 
      cgtacgaac cacatccta gagtgtgaa ttctacttg 
      ttagaaaac ctcgactgt tgcttgatc gtctatcag 
      ccttataga cctctctta caactagtg caagacatg 
      ggtcaagaa gatcaactt ttgactctc gcctggagg 
      atagtgaac gattctctt aggactgat gtgtgtttg 
      ctttatcca ccatatcaa attgcaatt ggctgtctt 
      caaatagct tgtgtcatc ttgcaaaag gaccacaag 
      gcttggttt gccgaactg aacgtggac atagaacga 
      attcaagaa attgcaaga tacgttatt aatttattc 
      gagctgtgg aagacttac gacgagaag aaagaaatt 
      caaggactg ttgaataaa atgcctaaa ccaaaacct 
      gcccctcaa agatagaaa tcggacgat ttctacgtg 
      actttacgc ttataacta tcacttaaa tatttattc 
      tttgattca attcaacat aactgtgct aatttcaga 
      ataaagttc ctagattta tgaagtgtt ttatgttat 
      ttcaatggt tgctttgtt gcggtatga gtttatgcc 
      tccgcatgt tgttaataa caccgtcca aagacgtag 
      ttttcttct tggcgctgc ctttcagtg cttcctctc 
      ctttgtttc gaattttga ggcgtgggg acgtagttt 
      cgtccnnnn nnnnnnnnn nn
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY