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Gene information
General information
TC005123 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_015450232.1: 42424..48863
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
    TC005123
    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
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_03908

    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: 50.0% (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


    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005123 RA
      MNNLLKICK KVNQTPVRH FFGATTNLQ QIRENIESG 
      TSGHLPLTI LSEDELAMK ETVARLARE QINPHVRDM 
      EKEGKFKQS IVDMLFENG LMGIEISTD LGGAGCNFM 
      TTILCIEEI AKVDPSIAV MVDIQNTLV NNVIKKLGT 
      EEQKKKYLP QLATNMCSS FALTEPSSG SDAFALKTT 
      AKKDGSDFL INGSKMWIS NSDLAGLFL VMANADPSS 
      GYKGITCFL IERDTPGLT VAIPEKKLG LCASGTCML 
      TFDNVRVPE SAILGEYGK GYKIAAGFL NEGRVGIGA 
      QMVGLAQGC FDATIPYTL ERTQFGKSI FNFQGMQHQ 
      IAQIATQIE SARLLVYNA ARLVENGHP FIKEAAMAK 
      WYSADVAQQ TCVKCIDWM GGVGFSKDF IQEKFYRDV 
      KIGSIYEGT YNMQLNTIA KHLAKEYQN
    CDS sequence
    • >TC005123 RA
      atgaacaat ttattgaaa atatgcaaa aaggttaat 
      caaacacca gtaaggcat tttttcggt gcaacaacc 
      aatttgcaa caaattaga gaaaatatc gaaagtggc 
      acttcgggg catttacct ttaactatt ttaagcgaa 
      gatgaatta gctatgaaa gaaacagtc gcacgatta 
      gctcgggaa caaataaat cctcacgtc agagatatg 
      gaaaaggag ggaaaattt aaacaatca attgtcgac 
      atgttgttt gaaaacgga ctgatgggg attgaaata 
      agtacggat ttaggagga gctggttgt aattttatg 
      acgacgatt ttgtgtatt gaagaaata gccaaagtt 
      gatccgtct attgcggtt atggttgat attcaaaat 
      actttagtc aataatgtt atcaagaaa ttggggact 
      gaggaacag aaaaaaaag tatttgcca caattggcc 
      acaaatatg tgtagcagt tttgcccta accgagccc 
      tcctcaggc tccgacgca ttcgcactt aagacaaca 
      gctaaaaaa gacggttcc gatttcctc ataaacggc 
      tcaaaaatg tggatttcg aattctgac ttggccgga 
      ttattcctt gtaatggca aacgccgac ccttcatcg 
      ggttacaaa ggaattact tgtttcctg atcgaaaga 
      gatactcca ggcctaaca gttgcaatt cctgaaaaa 
      aaactagga ttgtgtgct tccggcact tgtatgctc 
      acttttgac aatgtgaga gtgccggaa tctgcaatt 
      ttgggcgaa tacgggaaa ggttataaa atcgcagct 
      ggctttttg aacgagggg agagtggga ataggggca 
      caaatggtc ggtttggcc caaggatgt tttgatgcc 
      actattcca tacacactg gaaaggaca caatttgga 
      aaatcgatt tttaatttc cagggaatg caacaccaa 
      atcgcccaa atcgccaca caaatcgaa agtgctcga 
      cttcttgta tacaatgcg gcgagattg gttgaaaat 
      gggcatcct tttataaaa gaagcagcg atggccaaa 
      tggtactcg gcagatgtt gctcaacag acttgtgtc 
      aaatgtatc gattggatg ggtggtgtt ggattcagc 
      aaggacttt atccaagag aaattttac cgagatgtt 
      aaaattgga agcatttat gaaggaacg tacaatatg 
      cagctgaat acgattgca aaacacttg gcgaaagaa 
      tatcaaaat tga
    mRNA sequence
    • >TC005123 RA
      aaagaataa ttcgaattg aattaattt tgcctatac 
      attccaatt tgtaaatta tcagtattt cgccacaaa 
      acgaatgtc agcgtcaat tgaataata aagcaactt 
      acgaataaa tgtgattat catttggac aataagtct 
      accgtaaac acgattcca attaaccta attttgtaa 
      ttcaaagac acaaaaatg aacaattta ttgaaaata 
      tgcaaaaag gttaatcaa acaccagta aggcatttt 
      ttcggtgca acaaccaat ttgcaacaa attagagaa 
      aatatcgaa agtggcact tcggggcat ttaccttta 
      actatttta agcgaagat gaattagct atgaaagaa 
      acagtcgca cgattagct cgggaacaa ataaatcct 
      cacgtcaga gatatggaa aaggaggga aaatttaaa 
      caatcaatt gtcgacatg ttgtttgaa aacggactg 
      atggggatt gaaataagt acggattta ggaggagct 
      ggttgtaat tttatgacg acgattttg tgtattgaa 
      gaaatagcc aaagttgat ccgtctatt gcggttatg 
      gttgatatt caaaatact ttagtcaat aatgttatc 
      aagaaattg gggactgag gaacagaaa aaaaagtat 
      ttgccacaa ttggccaca aatatgtgt agcagtttt 
      gccctaacc gagccctcc tcaggctcc gacgcattc 
      gcacttaag acaacagct aaaaaagac ggttccgat 
      ttcctcata aacggctca aaaatgtgg atttcgaat 
      tctgacttg gccggatta ttccttgta atggcaaac 
      gccgaccct tcatcgggt tacaaagga attacttgt 
      ttcctgatc gaaagagat actccaggc ctaacagtt 
      gcaattcct gaaaaaaaa ctaggattg tgtgcttcc 
      ggcacttgt atgctcact tttgacaat gtgagagtg 
      ccggaatct gcaattttg ggcgaatac gggaaaggt 
      tataaaatc gcagctggc tttttgaac gaggggaga 
      gtgggaata ggggcacaa atggtcggt ttggcccaa 
      ggatgtttt gatgccact attccatac acactggaa 
      aggacacaa tttggaaaa tcgattttt aatttccag 
      ggaatgcaa caccaaatc gcccaaatc gccacacaa 
      atcgaaagt gctcgactt cttgtatac aatgcggcg 
      agattggtt gaaaatggg catcctttt ataaaagaa 
      gcagcgatg gccaaatgg tactcggca gatgttgct 
      caacagact tgtgtcaaa tgtatcgat tggatgggt 
      ggtgttgga ttcagcaag gactttatc caagagaaa 
      ttttaccga gatgttaaa attggaagc atttatgaa 
      ggaacgtac aatatgcag ctgaatacg attgcaaaa 
      cacttggcg aaagaatat caaaattga agctcaaat 
      tttgttaaa ctgaaacaa gataattgt gagaaataa 
      atatttttc tcaaag
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY