Status
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Gene information
General information
TC015650 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_007421.3: 4117584..4124078
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
    TC015650
    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_05860

    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)

    adult lethality - Number of animals showing the phenotype: 4 (9 dpi)
    Days post injection


    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): 30% - 50%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    head number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    head number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    thorax number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae - 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: % (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
    • >TC015650 RA
      MASSFNADT ISECSEAST LIDGSVIST VPDRHGFLG 
      GAQYSPEPR QGPPPEIVL RRERKWLKM LSQWNFYMD 
      RNYRKIKER CRKGIPMSI RPRAWLYLC GGKLLMDKN 
      QHVYEECLR AEGDPKCID DIKKDIHRQ FPTHEMFSS 
      EDKPGQTEL FNVLKAYTV QNPKIGYCQ AQAPVAAFL 
      LMHLPAVQA FWCLVSISD RYLEDYYSP TMEVVQRDG 
      LILQGLLKK VCPAAYKHL KKVNAEPMF YCTEWFLCA 
      FTRTLPWDS LLRVWDVFL CEGVKILFK TALVILISC 
      LGTAKSRKQ CPGLCETLN KLRNPPEEV LSEQNLISN 
      IYRLDLSEK DFEMEHQKQ TIRMKSEKA KGQR
    CDS sequence
    • >TC015650 RA
      atggcatcg tcgttcaac gctgacacg atctccgaa 
      tgcagtgaa gctagcacg ctgattgac ggcagtgtc 
      atttcgaca gtaccggac cgacatggc tttttaggg 
      ggcgcacag tactcgccc gagccgaga caagggccc 
      ccgcccgaa atcgtgctc cggagggag cgcaagtgg 
      ctgaagatg ctgtcgcag tggaatttc tacatggac 
      aggaattac aggaagatt aaggagagg tgccggaaa 
      ggcattccg atgtcgatt cgcccccgc gcttggctc 
      tacctctgc ggtggcaaa ctcctaatg gacaaaaac 
      cagcacgtg tacgaggag tgtttacgt gccgaaggc 
      gaccccaaa tgcatcgac gacataaaa aaagacatc 
      caccgtcaa ttccccacc cacgaaatg ttcagttcc 
      gaagacaaa cccggccag accgagctt ttcaacgtc 
      ctcaaagcc tacacagtc cagaacccc aaaatcggc 
      tactgccaa gcgcaagcc cccgtcgcc gccttcctc 
      ctgatgcac ctgccggca gtgcaggcc ttctggtgc 
      ctggtgagc atctccgac cgatacctg gaggactac 
      tactcgccc accatggag gtggtgcag cgcgacggc 
      ctcatcctc caggggctg ttgaagaag gtgtgtcct 
      gcggcgtac aagcacctc aagaaggtg aacgcagag 
      ccgatgttc tactgcacg gagtggttc ttgtgcgcg 
      ttcacgcgg acgctgccc tgggactcg ctgttgagg 
      gtctgggac gtgtttctg tgcgagggg gtgaagatt 
      ttgttcaag acggcgctg gttatcctg atcagttgt 
      ctggggacg gcgaaaagc cgcaaacag tgccctggg 
      ttgtgtgag acgctgaat aagttgcgg aatccgccg 
      gaagaggtg ctgtcggag cagaacttg atcagcaat 
      atttatcgg ctggacttg agcgagaag gacttcgag 
      atggagcac cagaaacag acgattcgg atgaagagc 
      gagaaggcg aaggggcag cggtga
    mRNA sequence
    • >TC015650 RA
      cctcaatca actgtcact ttttgtcaa catagctcg 
      actcgcccc ccgactaat aaattaatc accaattaa 
      ttacaaacg ccgtccacg tccgaattt taattccgt 
      acgtgagtg tgccactgt gtgcgttct attacatcc 
      agttgaaac gcgccccga aaatggtcg ccgacaagt 
      cgacgactt gaaaacata ttgcgaaac ttggtaaat 
      atcaatgtg aaaagtgaa ccaacagcc cccggaatg 
      gcatcgtcg ttcaacgct gacacgatc tccgaatgc 
      agtgaagct agcacgctg attgacggc agtgtcatt 
      tcgacagta ccggaccga catggcttt ttagggggc 
      gcacagtac tcgcccgag ccgagacaa gggcccccg 
      cccgaaatc gtgctccgg agggagcgc aagtggctg 
      aagatgctg tcgcagtgg aatttctac atggacagg 
      aattacagg aagattaag gagaggtgc cggaaaggc 
      attccgatg tcgattcgc ccccgcgct tggctctac 
      ctctgcggt ggcaaactc ctaatggac aaaaaccag 
      cacgtgtac gaggagtgt ttacgtgcc gaaggcgac 
      cccaaatgc atcgacgac ataaaaaaa gacatccac 
      cgtcaattc cccacccac gaaatgttc agttccgaa 
      gacaaaccc ggccagacc gagcttttc aacgtcctc 
      aaagcctac acagtccag aaccccaaa atcggctac 
      tgccaagcg caagccccc gtcgccgcc ttcctcctg 
      atgcacctg ccggcagtg caggccttc tggtgcctg 
      gtgagcatc tccgaccga tacctggag gactactac 
      tcgcccacc atggaggtg gtgcagcgc gacggcctc 
      atcctccag gggctgttg aagaaggtg tgtcctgcg 
      gcgtacaag cacctcaag aaggtgaac gcagagccg 
      atgttctac tgcacggag tggttcttg tgcgcgttc 
      acgcggacg ctgccctgg gactcgctg ttgagggtc 
      tgggacgtg tttctgtgc gagggggtg aagattttg 
      ttcaagacg gcgctggtt atcctgatc agttgtctg 
      gggacggcg aaaagccgc aaacagtgc cctgggttg 
      tgtgagacg ctgaataag ttgcggaat ccgccggaa 
      gaggtgctg tcggagcag aacttgatc agcaatatt 
      tatcggctg gacttgagc gagaaggac ttcgagatg 
      gagcaccag aaacagacg attcggatg aagagcgag 
      aaggcgaag gggcagcgg tgagggggg ctgagtgta 
      atgatggtg gaacagatc gaatatatt tcttgttac 
      atttttgca tttattagt tatgttaag gcagcacct 
      gtttttttc tagtctaag gtgcaacaa aattcgttt 
      atttctagg tcttttcta ttatgatgt tttctatcg 
      actgtatat aagagatga gataatttt tcaaattaa 
      taaatctga tgacggtta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY