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Gene information
General information
TC030256 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: 4099580..4100979
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
    TC030256
    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_09338

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (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: % (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
    • >TC030256 RA
      MPLLDEIPF YWKYIYKII GIIQFPTEE NASNIVPHL 
      WPLPQNCLF IYICVKYYV SINHLKFLG IFYFVDALT 
      SIGTALSLV ISITIFIQR SRDLKKLLL QLKEIKIDS 
      VHRKTRSKA NHYLRIILI ITIFYYFLF IPFESEPLF 
      YTLFFIYPG IILLFDHIF LSDILEIIC NEFEQINRE 
      IKYQTTSHR IIFKTKKIN DEEINDKMV RAEQLSLCH 
      CDLTALTLN ICHHFETTI IVAMITSFN YVTSTVYFL 
      IYFLARSYE ANLFVLFGN NFAFLSFYV FWLLLILEM 
      FTRTEKEAN ITGRYIHDI WNKFEANGN MTKKLRHLQ 
      LVSIRFLNN KLEFRARNF FRLDWSFCH TMIAAITTY 
      VIILVQFHI
    CDS sequence
    • >TC030256 RA
      atgcctctt ttagacgaa ataccattt tattggaaa 
      tacatttac aaaataatt ggaataatt cagtttcca 
      actgaagaa aatgcttca aacattgtt ccccatctg 
      tggcctctt ccacaaaac tgcttattt atctacatt 
      tgtgttaaa tattacgtg agcataaac cacctcaaa 
      tttttgggg atattctac tttgtggac gcattaaca 
      tcaattgga actgcctta agtctggtg atatctatc 
      actatattt atacaaaga agtcgtgat ttgaagaaa 
      ttgttactt caactaaaa gaaattaaa attgattca 
      gtccatcgg aaaacacgc agtaaagca aatcactat 
      ttacgaatt attttaatt attaccatt ttctattac 
      tttctgttt attccgttt gagtccgaa cccttattt 
      tacactcta ttttttatt tatcccgga ataatactc 
      ttgtttgat catatattt ctgagcgat attttagaa 
      ataatttgt aacgaattc gagcaaatt aaccgggaa 
      ataaaatac caaacgacg tcacatcgt attatcttc 
      aaaaccaaa aaaataaat gacgaggaa ataaacgac 
      aaaatggtt cgagctgaa caactgtct ttgtgtcac 
      tgcgaccta acggccctc acattgaac atttgtcac 
      cactttgag acgacaata atcgtggca atgatcact 
      agcttcaat tacgttact tccactgtc tatttttta 
      atctacttt ctggcacgt tcttacgaa gccaatttg 
      tttgttttg ttcggtaat aactttgct tttctttcg 
      ttctacgtg ttttggctt cttctaatt ctggagatg 
      ttcacgagg accgaaaaa gaggccaat ataaccgga 
      cgttacata cacgatatt tggaataag tttgaagcg 
      aatggaaat atgactaaa aagctgcga catcttcag 
      ctagtttcg attcgtttt ctgaacaat aaactggaa 
      tttagggca agaaatttt tttcgactg gattggagt 
      ttttgccac actatgata gctgccata accacttac 
      gttattata ttagttcag tttcatatc taa
    mRNA sequence
    • >TC030256 RA
      tgtgcaatt aaccttcga tgtttacta accgtagaa 
      taattagta ataaaaaat taaacctca tgcacttaa 
      caaatgaac tcttatcta ctgtaaata caaaacatg 
      ttcatttct ttgttggaa attattaca aaaattgta 
      atgttacga aaatgcctc ttttagacg aaataccat 
      tttattgga aatacattt acaaaataa ttggaataa 
      ttcagtttc caactgaag aaaatgctt caaacattg 
      ttccccatc tgtggcctc ttccacaaa actgcttat 
      ttatctaca tttgtgtta aatattacg tgagcataa 
      accacctca aatttttgg ggatattct actttgtgg 
      acgcattaa catcaattg gaactgcct taagtctgg 
      tgatatcta tcactatat ttatacaaa gaagtcgtg 
      atttgaaga aattgttac ttcaactaa aagaaatta 
      aaattgatt cagtccatc ggaaaacac gcagtaaag 
      caaatcact atttacgaa ttattttaa ttattacca 
      ttttctatt actttctgt ttattccgt ttgagtccg 
      aacccttat tttacactc tatttttta tttatcccg 
      gaataatac tcttgtttg atcatatat ttctgagcg 
      atattttag aaataattt gtaacgaat tcgagcaaa 
      ttaaccggg aaataaaat accaaacga cgtcacatc 
      gtattatct tcaaaacca aaaaaataa atgacgagg 
      aaataaacg acaaaatgg ttcgagctg aacaactgt 
      ctttgtgtc actgcgacc taacggccc tcacattga 
      acatttgtc accactttg agacgacaa taatcgtgg 
      caatgatca ctagcttca attacgtta cttccactg 
      tctattttt taatctact ttctggcac gttcttacg 
      aagccaatt tgtttgttt tgttcggta ataactttg 
      cttttcttt cgttctacg tgttttggc ttcttctaa 
      ttctggaga tgttcacga ggaccgaaa aagaggcca 
      atataaccg gacgttaca tacacgata tttggaata 
      agtttgaag cgaatggaa atatgacta aaaagctgc 
      gacatcttc agctagttt cgattcgtt ttctgaaca 
      ataaactgg aatttaggg caagaaatt tttttcgac 
      tggattgga gtttttgcc acactatga tagctgcca 
      taaccactt acgttatta tattagttc agtttcata 
      tctaatctt tctatagta caacggttt taataaaac 
      attaaatta aca
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY