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Gene information
General information
TC002384 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_015450438.1: 40932..44629
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
      TC002384
      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
      {{ goGene }}
      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
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      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_03365

      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


      Analysis of larval stage 1 cuticle
      number of eggs/embryos/larvae on slide: < 50
      larva partially dorsalnot closed - Penetrance (percentage of animals/eggs on slide): less than 30%
      abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

      affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): less than 30%
      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
      • >TC002384 RA
        MNVKLLFGF VVVIFCFVN SCSANLDEK 
        SLNNATEYE VIGRQLVEQ GRTLVHHAA 
        KRFMIILPA IFFKLGIAF TLLILVALA 
        AVNNGFIGF MLLVVGLSS VLARLQDTR 
        RAAAVPVSY ISPLPPYHH HEVWDRSDV 
        TGNRNDETK ASYYNSYSG QGVQYNPAG 
        ASYYAKYAN AKV
      CDS sequence
      • >TC002384 RA
        atgaatgta aagttactt tttggtttt gtggttgtt 
        atattttgt ttcgttaat tcttgcagt gcgaatttg 
        gacgagaaa agtttaaat aatgcgacg gaatatgaa 
        gttattgga agacagttg gtagaacaa ggtcgtacg 
        cttgtccat cacgccgcc aaacggttc atgatcatt 
        ttacccgct atattcttc aagttagga attgcattc 
        acgttactt atccttgta gcgttagcc gctgttaac 
        aacggtttc atcggattt atgcttctt gtagtcgga 
        ctcagtagc gttcttgca cgtttgcaa gatacgaga 
        agagctgct gcggttccg gtttcttac atcagtcct 
        ctgcctcct taccatcat cacgaagta tgggacagg 
        agtgacgtg actggaaac aggaatgac gagaccaaa 
        gcgagttat tataacagt tattctgga caaggtgtt 
        cagtataac ccagctggg gccagttat tatgccaaa 
        tatgcaaat gctaaagtt tag
      mRNA sequence
      • >TC002384 RA
        tttttcaag tatttgttg acagtagac tgtagcaca 
        caaaatgaa tgtaaagtt actttttgg ttttgtggt 
        tgttatatt ttgtttcgt taattcttg cagtgcgaa 
        tttggacga gaaaagttt aaataatgc gacggaata 
        tgaagttat tggaagaca gttggtaga acaaggtcg 
        tacgcttgt ccatcacgc cgccaaacg gttcatgat 
        cattttacc cgctatatt cttcaagtt aggaattgc 
        attcacgtt acttatcct tgtagcgtt agccgctgt 
        taacaacgg tttcatcgg atttatgct tcttgtagt 
        cggactcag tagcgttct tgcacgttt gcaagatac 
        gagaagagc tgctgcggt tccggtttc ttacatcag 
        tcctctgcc tccttacca tcatcacga agtatggga 
        caggagtga cgtgactgg aaacaggaa tgacgagac 
        caaagcgag ttattataa cagttattc tggacaagg 
        tgttcagta taacccagc tggggccag ttattatgc 
        caaatatgc aaatgctaa agtttagat aattattta 
        tttgttgaa acttaattt gtgttatgt tatttattg 
        tgtatacgt atttatgtt acctactaa ttattatta 
        tttaatatt tttaattaa acgttattt ctttta
      The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY