Status
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Gene information
General information
TC003733 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: 14050569..14058173
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
    TC003733
    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
    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_03609

    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: 30.0% (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


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC003733 RA
      MDFAIGGLA AAGASIFSN PFDMLKTRM QLQGELRAR 
      GQHTVHYKN VLHAAYVVA KTEGIRGLQ RGLGTAMIM 
      HTVRNSVRL GSYQWLSDR GFICDSEGK TIFLRSLIA 
      SAMTGAAGA FCGSPLFLI KTQLQSQAA NTIAVGHQH 
      GHAGLLHAV KTIYLKHGV QGLWRGADA VMLRAVAGS 
      SAQLSSFNK TKDFLREFE VFKHSTFLT AFAASIVGG 
      VFQTVVIAP FDIVTTRLY NQATDAQGR GLLYKGITD 
      CFIKIYKCE GIPGLYKGI GANYMRLAP HGALCLILW 
      DVLKDLQKK YQRSEIGTK QVL
    CDS sequence
    • >TC003733 RA
      atggatttc gcaattggg ggcctcgcc gccgcgggg 
      gctagcatc ttcagcaac cccttcgac atgctaaaa 
      acccgcatg caacttcag ggggaattg cgtgccaga 
      ggccagcac accgtccac tacaagaat gttttacac 
      gcagcgtac gttgttgca aaaacggag ggcataagg 
      gggctgcag aggggccta ggcaccgcc atgatcatg 
      cacacggtg cgcaacagc gtaagactg ggctcctac 
      cagtggttg agcgatcgc ggttttatt tgtgactca 
      gaaggcaaa actattttt cttcggagt ttgattgct 
      agtgctatg actggggct gctggggcg ttctgtgga 
      agccccctt tttctgatt aagacgcag ttgcagtcg 
      caagcggct aataccata gctgtaggg caccagcat 
      ggacatgcg gggcttctg catgccgtt aaaaccatt 
      tatttgaaa catggggtt caagggttg tggcggggg 
      gctgatgct gttatgttg agggctgtg gcagggtct 
      tcggctcag ttgagtagt tttaataag acgaaggat 
      tttttgagg gagtttgaa gtgtttaaa cattccacg 
      tttttaact gcatttgct gccagtatt gtgggggga 
      gtgtttcag actgttgtg attgcaccg tttgatatt 
      gttacgacg cgtctatac aatcaagct acggacgca 
      cagggccgt ggactcttg tacaaagga ataacagac 
      tgctttatc aaaatttac aagtgcgaa ggaatccca 
      ggactctat aaaggaatc ggtgcaaac tacatgaga 
      ttagctcca cacggtgct ttatgcctg attttatgg 
      gacgtttta aaagactta caaaaaaaa tatcaacgg 
      agtgagata ggtacaaaa caagtattg taa
    mRNA sequence
    • >TC003733 RA
      ttattaaaa aaaactaat cataattca taattcaat 
      attttatct gcgataaca aacaccttc ataattagg 
      taaatcaag ccaaaattt tatctgcgc aagattaca 
      caattttat taacacaac gacagtgac aaaaaatgg 
      attttttcc taaaccgca gagtcagac atgaactct 
      gtaccctat ttatctggc cccaagaca cataaaata 
      ctttgttgg gtattactt ggatatttt tgtagtcca 
      atttaaaaa taggaaagt tcagttaaa gtgatgcat 
      gttcgcaac taagcgcga attgtgtgg caaattaat 
      tagtttatg gagaaacaa tgtcattag tgagcaatt 
      ctacaattt tctagatca accaaactc cagtatatt 
      atcaccatg tgtttgtcg ttaatttaa catcaaatt 
      atcacacaa tggatttcg caattgggg gcctcgccg 
      ccgcggggg ctagcatct tcagcaacc ccttcgaca 
      tgctaaaaa cccgcatgc aacttcagg gggaattgc 
      gtgccagag gccagcaca ccgtccact acaagaatg 
      ttttacacg cagcgtacg ttgttgcaa aaacggagg 
      gcataaggg ggctgcaga ggggcctag gcaccgcca 
      tgatcatgc acacggtgc gcaacagcg taagactgg 
      gctcctacc agtggttga gcgatcgcg gttttattt 
      gtgactcag aaggcaaaa ctatttttc ttcggagtt 
      tgattgcta gtgctatga ctggggctg ctggggcgt 
      tctgtggaa gcccccttt ttctgatta agacgcagt 
      tgcagtcgc aagcggcta ataccatag ctgtagggc 
      accagcatg gacatgcgg ggcttctgc atgccgtta 
      aaaccattt atttgaaac atggggttc aagggttgt 
      ggcgggggg ctgatgctg ttatgttga gggctgtgg 
      cagggtctt cggctcagt tgagtagtt ttaataaga 
      cgaaggatt ttttgaggg agtttgaag tgtttaaac 
      attccacgt ttttaactg catttgctg ccagtattg 
      tggggggag tgtttcaga ctgttgtga ttgcaccgt 
      ttgatattg ttacgacgc gtctataca atcaagcta 
      cggacgcac agggccgtg gactcttgt acaaaggaa 
      taacagact gctttatca aaatttaca agtgcgaag 
      gaatcccag gactctata aaggaatcg gtgcaaact 
      acatgagat tagctccac acggtgctt tatgcctga 
      ttttatggg acgttttaa aagacttac aaaaaaaat 
      atcaacgga gtgagatag gtacaaaac aagtattgt 
      aaaataatg tatttatta ttgtataac aggatataa 
      taaaatata tacttggca aagtcagaa ctgggctga 
      cgatgcttt gttataaaa aattgtaat ggaatgtaa 
      tgtgttata aaagccaac gaagaaacc attggcaag 
      tgaaataaa aacaaaaca aatataata taaaaacaa 
      tggctataa attacaaaa tatgatata aaaattaag 
      tacaatatt tgatacagt cgtaaaaaa tgttaatat 
      attaagtgt aaatctatg atttgttta cagaaatgt 
      gctccaatc tacggagga ctaaaaatt tcgtacatt 
      ttttggtgg atatttatg tgttaataa cttaaaaat 
      aaggcaaaa ttttgtttt aaccggatt tttacaaga 
      tatt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY