Status
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Gene information
General information
TC015920 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_007422.5: 4206960..4208735
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
    TC015920
    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
    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_05925

    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: 40.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (3 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
    • >TC015920 RA
      MEPEEHLLA LKVMRLTRP TLATPLPVT CDSKDLPGN 
      LLNVALQQD AASVKGTET LSIGQFLLL PQSPVNIYL 
      GETFSSYIC VYNETQHIV SNVSVKVDL QTTSQRLPL 
      SSNPPTPQL TPDDTVNIV IHHEVKEIG NHILVCEVS 
      YQNAVGILK SFRKFFKIQ VLKPLDVKT KFYNAENDD 
      VYLEAQVQN ITTGPICLE KVALDASHL FKVTSLNVT 
      PTGESIFGK TTLLNPQAV CQFLYCLSP NEKLSSDLK 
      SLSGATNIG KLDIVWRSN LGERGRLQT SQLQRMGPD 
      YGDIRLSIT ELPNFVVLE ELFAFKCRL VNNCERSVE 
      LMMYLDNSD GLAWCGISG RKLEVLPPH STRVLEFKA 
      IPLIPGLRT LSGIKLVDT FLKRTYNYD DLGQVFVIV 
      NDNVGKSI
    CDS sequence
    • >TC015920 RA
      atggagcca gaggagcac ttactggct ttgaaagtt 
      atgcgtctt acgcgcccc actctggcc actcctctg 
      ccagtgact tgcgacagc aaggacttg cccggtaat 
      ttgctaaat gttgccctt cagcaggac gctgcgtcg 
      gttaaaggc accgaaacg ttgtctata ggccaattt 
      ttgctgcta cctcaaagt ccagttaat atttattta 
      ggcgaaacg ttttctagc tacatttgt gtgtacaat 
      gagactcaa cacattgtt agtaatgtt agtgttaaa 
      gtggacttg cagaccact tctcagcga ttgccttta 
      tcctcgaat cctccaacc cctcaactg acccctgat 
      gacactgtt aatattgtt atccatcat gaggtcaaa 
      gaaattgga aatcacatt ttggtgtgt gaagtgtct 
      tatcagaac gcagtagga attcttaaa tcgttcagg 
      aaatttttc aaaattcaa gtacttaag ccgcttgac 
      gtcaaaacg aagttctac aatgcggaa aacgacgat 
      gtttatttg gaggcccag gtgcagaac atcaccaca 
      ggccccata tgtttggaa aaggtggcc ttggacgcg 
      tcccacctc tttaaagtt acgtccttg aatgtgaca 
      ccaacaggt gagagcatt tttggcaaa acaaccctt 
      ttaaaccct caagctgtt tgccaattt ttgtactgc 
      ctatcaccc aatgaaaaa ttgtcttcc gatttgaag 
      agtttaagt ggggccaca aacattggc aagttggat 
      atagtgtgg aggtcgaat ttgggcgaa aggggcagg 
      ttgcagaca agtcagctt caaagaatg ggacctgat 
      tatggtgat ataagatta tcgattacc gaattacct 
      aatttcgta gtcttggaa gagttgttt gcgttcaaa 
      tgccggctg gttaataat tgcgaaaga agtgttgag 
      ttaatgatg tatttggat aactcagat ggcttggct 
      tggtgtggc atttctggc cgtaagtta gaagtgttg 
      ccaccacac tccacccga gttttagaa tttaaagca 
      atccccctt attccgggc ctgcgaacc ctttccggg 
      atcaaatta gtcgacacg ttcctcaaa agaacttac 
      aactacgac gatctaggt caagtcttt gtgatagtt 
      aatgataat gttggaaaa agtatttaa
    mRNA sequence
    • >TC015920 RA
      tcacaccaa cttgtcaga ctgacgttt aaccaaaca 
      aataacctc ccctaattt tgctaaaaa tggagccag 
      aggagcact tactggctt tgaaagtta tgcgtctta 
      cgcgcccca ctctggcca ctcctctgc cagtgactt 
      gcgacagca aggacttgc ccggtaatt tgctaaatg 
      ttgcccttc agcaggacg ctgcgtcgg ttaaaggca 
      ccgaaacgt tgtctatag gccaatttt tgctgctac 
      ctcaaagtc cagttaata tttatttag gcgaaacgt 
      tttctagct acatttgtg tgtacaatg agactcaac 
      acattgtta gtaatgtta gtgttaaag tggacttgc 
      agaccactt ctcagcgat tgcctttat cctcgaatc 
      ctccaaccc ctcaactga cccctgatg acactgtta 
      atattgtta tccatcatg aggtcaaag aaattggaa 
      atcacattt tggtgtgtg aagtgtctt atcagaacg 
      cagtaggaa ttcttaaat cgttcagga aatttttca 
      aaattcaag tacttaagc cgcttgacg tcaaaacga 
      agttctaca atgcggaaa acgacgatg tttatttgg 
      aggcccagg tgcagaaca tcaccacag gccccatat 
      gtttggaaa aggtggcct tggacgcgt cccacctct 
      ttaaagtta cgtccttga atgtgacac caacaggtg 
      agagcattt ttggcaaaa caacccttt taaaccctc 
      aagctgttt gccaatttt tgtactgcc tatcaccca 
      atgaaaaat tgtcttccg atttgaaga gtttaagtg 
      gggccacaa acattggca agttggata tagtgtgga 
      ggtcgaatt tgggcgaaa ggggcaggt tgcagacaa 
      gtcagcttc aaagaatgg gacctgatt atggtgata 
      taagattat cgattaccg aattaccta atttcgtag 
      tcttggaag agttgtttg cgttcaaat gccggctgg 
      ttaataatt gcgaaagaa gtgttgagt taatgatgt 
      atttggata actcagatg gcttggctt ggtgtggca 
      tttctggcc gtaagttag aagtgttgc caccacact 
      ccacccgag ttttagaat ttaaagcaa tccccctta 
      ttccgggcc tgcgaaccc tttccggga tcaaattag 
      tcgacacgt tcctcaaaa gaacttaca actacgacg 
      atctaggtc aagtctttg tgatagtta atgataatg 
      ttggaaaaa gtatttaat aagtttatt taaaataaa 
      ttgtttctt taaca
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY