Status
Please wait ...
Gene information
General information
TC011829 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_007424.3: 13052620..13055967
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
    TC011829
    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_01893

    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: 5 (3 dpi)
    Days post injection


    remarks: later than schedule, hours 48 adult lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    Pupal morphology
    remarks: later than schedule, hours 48
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    thorax segment number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    thorax number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): more than 80%

    abdomen number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    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
    • >TC011829 RA
      MTRPPNEQT PTVKLVVVG DGGVGKSAI 
      TIQFFQRLF VTDYDPTIE DSYLQHVEV 
      DGQCCILDV LDTAGQEEF SAMREQYMR 
      KGDGFLLVY SVTDKNSYE NIVNFHTQI 
      LRVKDRDTY PMLLVANKV DLVHLRKIT 
      EEQGRELAH KLGIPYIET SAKDPPVNI 
      DATFHEVVR IIRNQPQPD HEKQKRRKL 
      SKLGKCIII
    CDS sequence
    • >TC011829 RA
      atgacgcgc cccccgaat gagcaaacc ccgactgtg 
      aagctcgtg gtcgtgggg gacggaggc gtggggaag 
      agcgccatc accattcag tttttccaa aggctgttt 
      gtgacggac tacgacccc acgatcgaa gacagttat 
      ttgcagcat gtggaggtg gacgggcag tgctgcatt 
      ttggatgtg cttgacaca gcggggcag gaggagttc 
      agcgcaatg cgggagcag tacatgagg aaaggggac 
      ggttttctg ttggtttac tcggtcact gataagaac 
      agttacgag aacattgtg aatttccac actcagatt 
      ctgagggtt aaagacagg gacacatat ccgatgttg 
      ttggtcgct aataaggtg gatttggtg catttgagg 
      aaaatcaca gaggagcaa gggcgggag ttggcgcat 
      aaattgggg attccgtac attgagacg agcgccaaa 
      gacccccca gtcaacata gacgccact ttccacgag 
      gttgtgcgc attataagg aatcagccg cagcccgac 
      cacgagaag caaaagcgg cggaagctc agcaagctt 
      ggaaaatgt attattatt taa
    mRNA sequence
    • >TC011829 RA
      cccatttca ggtaaatcc gcgtctgtt ggatcataa 
      aaattgctg ctaatttcg cttaattga gatgattca 
      aaattggcg cggtttttt tggacagat gacgcggcg 
      cacgcgcac aacgccccc acccacacc acccttttt 
      gtccgtttt ctcggcggt tttgcaatg atttagcca 
      aaaaacaac gaaaactgc aacaatgaa aggttatgg 
      gtcgccgac ggagcatcc cccaccgat tatcatgcg 
      tagtaattg actgaaacg caccaaaac tcgccaaaa 
      taggcaaaa aacgcaagt ttagtgcca ggactgcga 
      tgacgcgcc ccccgaatg agcaaaccc cgactgtga 
      agctcgtgg tcgtggggg acggaggcg tggggaaga 
      gcgccatca ccattcagt ttttccaaa ggctgtttg 
      tgacggact acgacccca cgatcgaag acagttatt 
      tgcagcatg tggaggtgg acgggcagt gctgcattt 
      tggatgtgc ttgacacag cggggcagg aggagttca 
      gcgcaatgc gggagcagt acatgagga aaggggacg 
      gttttctgt tggtttact cggtcactg ataagaaca 
      gttacgaga acattgtga atttccaca ctcagattc 
      tgagggtta aagacaggg acacatatc cgatgttgt 
      tggtcgcta ataaggtgg atttggtgc atttgagga 
      aaatcacag aggagcaag ggcgggagt tggcgcata 
      aattgggga ttccgtaca ttgagacga gcgccaaag 
      accccccag tcaacatag acgccactt tccacgagg 
      ttgtgcgca ttataagga atcagccgc agcccgacc 
      acgagaagc aaaagcggc ggaagctca gcaagcttg 
      gaaaatgta ttattattt aatttgctt ttctctatg 
      ttaacaggc ctattaatt gtatcctat agctttaaa 
      gtcaagtgt tcaatgtta cgtgtcata gattattgt 
      attctctgt atgatgagt ccaaggcaa actacatca 
      tgtttcaag aggaccaaa aactgctca ttttgctta 
      aaattggct cccgatggt acgaaaaac acggcacta 
      atttatttc agaccttca aaacgacat tgtgatatt 
      ttcgatttt tatacatat gtttagagg gatgaaaac 
      agtagtctt gttgacttg tattataac ccgctcatg 
      tttcatttg ataaccgac ttagctatt ttttaatac 
      taggcgtta atctagagt ttcagcacg ggcttcaag 
      tattagcca aagaaacgt acagttgtt aggtcaaac 
      aattgaatg actcagttt tatttacca aagttattt 
      tagtagaga tagcttaaa ctctagatt acagtatgt 
      ttttgacac tttattacg aatgtaatc ttttgtgta 
      cgatgtgtt aataaaatt tatttgaat ggaattttt 
      gggccattg aagtcacga aa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY