Status
Please wait ...
Gene information
General information
TC016005 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.

NW_015450700.1: 1933..9737
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
    TC016005
    Gene ontology

    GO terms for Tribolium

    • {{ goTerm.term }}
      ({{ goTerm.evidence }}){{ goTerm.evidenceTooltip }}
      {{goTerm.showAll ? '[-]' : '[+]'}}
      Status: {{ goTerm.status }}
      Evidence: {{ goTerm.evidence }} ({{ goTerm.evidenceTooltip }})
      Reference: {{ goTerm.referenceText }}
      Quotation: {{ goTerm.quotation }}
      Submitter: {{ goTerm.name }}

    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 *
    {{ blurIdResult }}
    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
    {{ blurEvidenceResult }}
    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 *
    {{ blurReferenceResult }}
    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
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    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.
      {{ unavailableText }}

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_02544

    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: 60.0% (includes death as pupa, adult)

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


    beetle stock: bad (increased lethality), adult lethality - Number of animals showing the phenotype: 3 (9 dpi)
    Days post injection


    Pupal morphology
    beetle stock: bad (increased lethality),
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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: 11.11% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 33.33% (includes death as larva, prepupa, pupa, adult)

    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 4 (22 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (22 dpi)
    Days post injection


    Pupal morphology
    mesonotum surface with protrusion - Number of animals showing the phenotype: 8

    Comment: the developing scutellum is bulged
    abdominal segment 7 sternum surface irregular - Number of animals showing the phenotype: 8

    Adult morphology
    elytra dorsal not closed - Number of animals showing the phenotype: 6


    elytra surface irregular - Number of animals showing the phenotype: 6

    scutellum slightly irregular - Number of animals showing the phenotype: 6


    Fertility
    egg production: number <50% of expected -
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC016005 RA
      MSVWSTSGG LDPGKTFKA KGDNTLYKR NHQCRMSQS 
      GDDLHSSQY LSWRKLHLS RAKLKASSK TSALLSGFA 
      MVAMVELQL QTPMTIPST VLVVFAIIT TLLVAVHML 
      ALMISTCIL PNIEAICNL DAIGLVHES PHERLHWYI 
      ETAWAFSTL LGLLLFLAE IAILCWVKF YDINKTAAW 
      SASVVLIPI LFVFLAFAI HFYRSLVAH KYEMTVSGI 
      RELERLKEQ IEQGDIEHN RVNGVNDLL SGVHIV
    CDS sequence
    • >TC016005 RA
      atgtctgtg tggagcacc tcagggggc ctagatcca 
      ggcaagacg ttcaaagcg aaaggggac aacacgctg 
      tataagagg aaccatcag tgcagaatg tcgcaatcc 
      ggcgacgac ctccactca tctcaatat ttatcatgg 
      cggaagctc catttaagc cgcgccaaa ctcaaagcg 
      tccagcaaa acatcggct ctattatct ggcttcgca 
      atggttgcg atggtagag ctccaactt cagacaccc 
      atgaccatt ccaagcaca gtcctagtc gtatttgcg 
      atcattaca acactactt gttgcagtt catatgctg 
      gctctaatg atcagcact tgtatttta ccaaatatt 
      gaggcgatt tgtaattta gatgcgatc ggacttgtt 
      cacgaatcg ccacacgag agattgcat tggtacatt 
      gaaacagct tgggctttc tcgactttg ctcggattg 
      ttgctgttt ctggccgaa attgcgatt ctctgttgg 
      gttaagttt tatgatatt aataaaacg gccgcttgg 
      tcggccagt gttgttctt ataccgatt ttgtttgtg 
      tttctcgct tttgcgata catttttac cgatcgctt 
      gttgctcac aaatatgaa atgacggtt tcggggatt 
      agggagctt gaaaggctc aaggaacag attgagcaa 
      ggggatatt gagcacaat agggttaat ggtgtcaat 
      gatttactt tcaggtgtg cacattgtt taa
    mRNA sequence
    • >TC016005 RA
      ttgcgttgt ttattggca aatttgtca aggaggtta 
      ggtttcatt tcactcaat ttttgtgat aagcagcaa 
      gtggttggg aaaatttaa tttcagagt gtttttgaa 
      gatacaaaa atggagtgt aactcatgt ctgtgtgga 
      gcacctcag ggggcctag atccaggca agacgttca 
      aagcgaaag gggacaaca cgctgtata agaggaacc 
      atcagtgca gaatgtcgc aatccggcg acgacctcc 
      actcatctc aatatttat catggcgga agctccatt 
      taagccgcg ccaaactca aagcgtcca gcaaaacat 
      cggctctat tatctggct tcgcaatgg ttgcgatgg 
      tagagctcc aacttcaga cacccatga ccattccaa 
      gcacagtcc tagtcgtat ttgcgatca ttacaacac 
      tacttgttg cagttcata tgctggctc taatgatca 
      gcacttgta ttttaccaa atattgagg cgatttgta 
      atttagatg cgatcggac ttgttcacg aatcgccac 
      acgagagat tgcattggt acattgaaa cagcttggg 
      ctttctcga ctttgctcg gattgttgc tgtttctgg 
      ccgaaattg cgattctct gttgggtta agttttatg 
      atattaata aaacggccg cttggtcgg ccagtgttg 
      ttcttatac cgattttgt ttgtgtttc tcgcttttg 
      cgatacatt tttaccgat cgcttgttg ctcacaaat 
      atgaaatga cggtttcgg ggattaggg agcttgaaa 
      ggctcaagg aacagattg agcaagggg atattgagc 
      acaataggg ttaatggtg tcaatgatt tactttcag 
      gtgtgcaca ttgtttaat tacacattt tttacaaat 
      catggctgt gtacaagta cagttttct caagacatg 
      gagcaattg agaactgtg atctgttat atttttaag 
      catttttac attattgta ttttt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY