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Gene information
General information
TC030242 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_007422.5: 10738949..10740431
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
    TC030242
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_07458

    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: 2 (3 dpi)
    Days post injection


    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: < 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: % (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
    • >TC030242 RA
      MTIITRSNN VVGGKFYKK RNKVSNFGL TFEFIFGII 
      ILYTTYSMS FVKRNHVRD VVLQLNRID ELLAKMKQK 
      FRYTRAVWY QLIIFFSGF LMILIIASM QIQNIRIEN 
      FPPLSLFMC IIFLFPLVI LYDLNSQYG FTAILIYER 
      CFIKCKTTQ KHTFRYFKQ NNDFDGNPR NLMQGGKHH 
      KLKLQHSDA TSHNARIFH QSLLNFLLL LDGNVTVVD 
      TILNLQIFQ HSSKPFSAS CWLAWGFLK SYEILHVTI 
      SCHLASQQA NIVGRKVHK VLIRTQNDE IEEKLLMFS 
      KQVQHSSFK FTLCGLFNI DAGLLFNMI GSSTTFIVI 
      MIQFQETIT PTICVSNKK AMF
    CDS sequence
    • >TC030242 RA
      atgacgatc ataacacgg tcaaataat gtagtgggt 
      gggaaattc tacaagaaa cgtaacaaa gtctcaaat 
      tttggacta acttttgag tttattttc ggcattatt 
      attttatac acaacttat tccatgagc ttcgttaag 
      agaaaccat gtgagagac gtggttctc caactgaac 
      agaatcgac gaattgttg gcgaaaatg aagcaaaaa 
      ttccgctac acgagagcc gtctggtac caattgatc 
      atatttttc tccggattc ttgatgatt ctaataatt 
      gcgtccatg caaattcag aacattaga atcgaaaat 
      ttcccgcca ctttcacta tttatgtgt attatcttt 
      ttgttccct ttggtgatt ttgtacgat ttgaacagc 
      cagtatggg tttacagct attttgatt tatgagaga 
      tgctttatt aaatgtaaa accacccaa aaacataca 
      ttccgatat tttaaacaa aataatgac tttgatgga 
      aatccacga aaccttatg caaggtggc aaacaccac 
      aaactcaaa ttacaacat tcagatgct accagccat 
      aacgcacga atttttcat cagtcttta ctcaatttt 
      ttactatta ttggatggt aatgtcaca gttgttgat 
      acaatttta aatttacaa atatttcag cactcgagt 
      aaaccattt tctgcgagc tgttggctg gcttggggt 
      ttcctaaag tcgtacgaa attctccac gttacaatt 
      tcttgtcat ttagcaagc caacaggct aacattgtt 
      gggagaaaa gtacacaaa gttttaata agaacacag 
      aatgacgag attgaggaa aaactttta atgttttca 
      aagcaggta cagcacagc agcttcaaa tttactttg 
      tgtgggctg ttcaatatt gacgctgga ttattattt 
      aacatgatt ggttcgtca acgacattt atcgttata 
      atgattcag tttcaggaa acaataaca cctacaatt 
      tgcgtttca aacaaaaaa gcaatgttt taa
    mRNA sequence
    • >TC030242 RA
      gtcaaacac aaatggcaa ttttacaag ccccgaacc 
      acttttacg aaagtttgt tgcccacat ttatattat 
      caacaattc tcggtgtct ttcccatgt ttcctatca 
      aaaaagccg gaaaatata gtctctact cttcgaaaa 
      aattgcatt ttattacag tgctgttcc ttataattt 
      acacgatct gtttcatta tgacgatca taacacggt 
      caaataatg tagtgggtg ggaaattct acaagaaac 
      gtaacaaag tctcaaatt ttggactaa cttttgagt 
      ttattttcg gcattatta ttttataca caacttatt 
      ccatgagct tcgttaaga gaaaccatg tgagagacg 
      tggttctcc aactgaaca gaatcgacg aattgttgg 
      cgaaaatga agcaaaaat tccgctaca cgagagccg 
      tctggtacc aattgatca tatttttct ccggattct 
      tgatgattc taataattg cgtccatgc aaattcaga 
      acattagaa tcgaaaatt tcccgccac tttcactat 
      ttatgtgta ttatctttt tgttccctt tggtgattt 
      tgtacgatt tgaacagcc agtatgggt ttacagcta 
      ttttgattt atgagagat gctttatta aatgtaaaa 
      ccacccaaa aacatacat tccgatatt ttaaacaaa 
      ataatgact ttgatggaa atccacgaa accttatgc 
      aaggtggca aacaccaca aactcaaat tacaacatt 
      cagatgcta ccagccata acgcacgaa tttttcatc 
      agtctttac tcaattttt tactattat tggatggta 
      atgtcacag ttgttgata caattttaa atttacaaa 
      tatttcagc actcgagta aaccatttt ctgcgagct 
      gttggctgg cttggggtt tcctaaagt cgtacgaaa 
      ttctccacg ttacaattt cttgtcatt tagcaagcc 
      aacaggcta acattgttg ggagaaaag tacacaaag 
      ttttaataa gaacacaga atgacgaga ttgaggaaa 
      aacttttaa tgttttcaa agcaggtac agcacagca 
      gcttcaaat ttactttgt gtgggctgt tcaatattg 
      acgctggat tattattta acatgattg gttcgtcaa 
      cgacattta tcgttataa tgattcagt ttcaggaaa 
      caataacac ctacaattt gcgtttcaa acaaaaaag 
      caatgtttt aattggcaa gagcaacaa ctaataaat 
      acttgttct tttt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY