Status
Please wait ...
Gene information
General information
TC003497 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: 6016080..6017608
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
    TC003497
    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_06936

    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: 10.0% (includes death as pupa, adult)

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


    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
    • >TC003497 RA
      MNLGGVIRL NKTGLCVIS GAVLILFIY VFTTSSNND 
      PPSVKINLK QLLEVAIKA AENGGKEVV ANKDNLQVK 
      SKGLTKEGM QDRVTTADY SSHCAIMKT LKHAYPTLH 
      IISEEKKVQ CDDREIDYL GHVTIPKSL DDHLEEIRD 
      ISVWIDPLD ATYEYTGKL YKYVTTMVC VAVKEEPVI 
      GVIHKPFNT ESHTFWAWV GKAKSSNLK YARSKSENI 
      KIIISMSHS GEIKKVLSE KMKNVDIIE AAGAGYKAL 
      EVALGNVDA YLHTTAIKK WDICAGNAI IKAVGGKMT 
      TKFNELIDY KDDTSVKNE KGLVVTITN HDMFIGKF
    CDS sequence
    • >TC003497 RA
      atgaatctt gggggtgtt atccgacta aacaagaca 
      gggctgtgt gtaatatcg ggagctgtg ctgatattg 
      tttatttac gtgtttact acaagttca aataatgat 
      cctccaagc gttaagata aatttaaag cagctcttg 
      gaggtagca attaaggca gcggaaaat gggggcaaa 
      gaagtggtt gcgaacaag gacaattta caagtaaaa 
      agcaaaggg ttgacgaaa gaaggaatg caagatagg 
      gtcaccact gcagattat tcgtcacac tgtgctatt 
      atgaaaact ttgaaacat gcatatccc accctgcat 
      ataatttca gaggagaaa aaggtccag tgtgacgac 
      agagaaatc gattacttg ggacatgta accattcct 
      aagagctta gatgaccat ttggaagaa attagggat 
      atttctgta tggattgat ccactagat gcaacttat 
      gaatacact ggaaaattg tacaagtat gtgactaca 
      atggtttgc gttgctgta aaagaagaa cctgttatt 
      ggtgtcatt cacaaacct tttaacact gaatctcac 
      acattttgg gcatgggtt ggcaaagca aaatcttca 
      aacttaaaa tatgcgagg agcaagagt gaaaatata 
      aagattata atctcaatg tcgcacagc ggtgaaata 
      aagaaagtt ttgagtgaa aaaatgaaa aatgtggac 
      ataattgaa gccgccggt gctggctat aaagctttg 
      gaagttgcc ttgggcaat gtggacgct tatttgcac 
      acaactgcc atcaagaag tgggatatt tgtgcagga 
      aacgctata ataaaggca gtgggaggt aaaatgaca 
      acgaaattt aacgaatta attgattat aaagatgat 
      accagtgtt aagaatgag aagggttta gtagtcact 
      ataaccaac catgacatg ttcattgga aaattttaa
    mRNA sequence
    • >TC003497 RA
      ggtgatttt gtgactaac ttcaccatt attgtggtt 
      gaaggtttt tttgattat ttgtaaggt gcaaaaatg 
      cgatgacgt ttgtttcta aatagtctt aagataatt 
      gttattcaa cttaaataa gtacaaaaa gcgaatgat 
      gtagataga gactcatcg gctgcataa caatgaatc 
      ttgggggtg ttatccgac taaacaaga cagggctgt 
      gtgtaatat cgggagctg tgctgatat tgtttattt 
      acgtgttta ctacaagtt caaataatg atcctccaa 
      gcgttaaga taaatttaa agcagctct tggaggtag 
      caattaagg cagcggaaa atgggggca aagaagtgg 
      ttgcgaaca aggacaatt tacaagtaa aaagcaaag 
      ggttgacga aagaaggaa tgcaagata gggtcacca 
      ctgcagatt attcgtcac actgtgcta ttatgaaaa 
      ctttgaaac atgcatatc ccaccctgc atataattt 
      cagaggaga aaaaggtcc agtgtgacg acagagaaa 
      tcgattact tgggacatg taaccattc ctaagagct 
      tagatgacc atttggaag aaattaggg atatttctg 
      tatggattg atccactag atgcaactt atgaataca 
      ctggaaaat tgtacaagt atgtgacta caatggttt 
      gcgttgctg taaaagaag aacctgtta ttggtgtca 
      ttcacaaac cttttaaca ctgaatctc acacatttt 
      gggcatggg ttggcaaag caaaatctt caaacttaa 
      aatatgcga ggagcaaga gtgaaaata taaagatta 
      taatctcaa tgtcgcaca gcggtgaaa taaagaaag 
      ttttgagtg aaaaaatga aaaatgtgg acataattg 
      aagccgccg gtgctggct ataaagctt tggaagttg 
      ccttgggca atgtggacg cttatttgc acacaactg 
      ccatcaaga agtgggata tttgtgcag gaaacgcta 
      taataaagg cagtgggag gtaaaatga caacgaaat 
      ttaacgaat taattgatt ataaagatg ataccagtg 
      ttaagaatg agaagggtt tagtagtca ctataacca 
      accatgaca tgttcattg gaaaatttt aattgtaca 
      taagtcttg aatttgttt taaagagtt ttgttacgt 
      gtgattaaa aagtaaatt ttgtaaggc gttcaaatg 
      tttaaattt tttaggaat ttgttgttt tttcagcgt 
      agtaggtac taaaaaacg gtaaggaaa catttttag 
      cccacaaat ctgttaatg tgttaaaca atgcacaag 
      tacatgacc gacatttta ggaataaac ccactatga 
      caaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY