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Gene information
General information
TC030196 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_007419.2: 4056806..4058067
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
    TC030196
    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
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    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_06023

    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)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    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: -1.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: -1.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC030196 RA
      MCYFNYSKK DIRSLSFFY KICNIFGIV PPYSFEKPD 
      SQKSLWKKI QGVVLVSII AAGTAYSIY VRHTYYRRL 
      YTITHLVLD YLDEFLIVA LAFQVILNS CFCDPAKWI 
      RLNNNLQYI DEVLKNRDS HETNLLRNV SVQFFVYVI 
      LYILATVFL AYVWICEMG VVTLQAYTL HLFCVLYVV 
      LLHFLTYNL SLGIKLRYD DVNNLFRIE ESEEKNIIV 
      SLRQIGSLS QLLSETVAL FNDVFGTCL ILITGKSIV 
      QLLTCLNFI TNNLKSENE EFKEKLLAA NLCLVIYTL 
      VSVSLVMVT CDACTIASK QTISWCYKL QEQFVTNSE 
      VRTELFKLA QHVSANIVH ITAGNYFEI NKATLCGIF 
      GTTTTYFIV ILQFNQSSA K
    CDS sequence
    • >TC030196 RA
      atgtgttat ttcaattac tccaaaaag gacatcaga 
      tccttgtcg ttcttttac aagatctgt aacattttc 
      ggtatcgtc cccccgtac agtttcgag aaacctgac 
      tcgcaaaaa tccctctgg aaaaaaatc caaggtgtt 
      gtcctggtg tcaatcatc gcagcaggg accgcatat 
      tcgatttac gtccggcat acatactac cgaagattg 
      tacaccata acccactta gtgctagac tatctggac 
      gaatttcta atcgtcgct ttggccttt caagtgatt 
      ctgaactcg tgtttttgc gatccggcc aaatggatc 
      cgcttgaac aacaatctc cagtacata gacgaagtt 
      ttgaaaaac cgcgattcg cacgaaacg aatttgtta 
      cgaaacgtc tcggtccag tttttcgtc tatgtgatt 
      ttgtacatt ttagcgacg gtgtttcta gcttatgtg 
      tggatttgc gaaatgggc gttgtgacc ctgcaagcg 
      tacactctg cacttattt tgtgttttg tacgtggtt 
      ttgttgcat tttctcacc tacaacctg tcgctggga 
      attaaattg agatacgat gatgtgaac aatttgttc 
      cgaattgag gagagtgag gagaaaaac atcatagtc 
      tcgttgaga caaatcggg agtctttcg caacttttg 
      agcgagacc gtggcactt tttaacgac gtcttcggg 
      acttgtctc attctcatc accgggaaa agtatagtc 
      cagcttctg acgtgtctc aactttatc acgaataat 
      ttaaaatcg gaaaatgag gagttcaaa gaaaaatta 
      ctagccgcg aatttgtgc ctagtcatc tatactttg 
      gtttctgta agtctagtt atggtcact tgtgacgct 
      tgtacgatc gcaagcaaa caaaccatt tcctggtgt 
      tacaaattg caagaacag tttgttaca aattcagaa 
      gtacgcaca gaattgttc aaactagcc cagcacgtg 
      tcagctaac atcgtccat attactgcc ggaaactac 
      ttcgaaata aataaagcc accctgtgt ggaattttt 
      gggaccaca accacctat ttcattgtt attttgcag 
      ttcaatcaa agctcagct aaataa
    mRNA sequence
    • >TC030196 RA
      tagttggca ttatgtgtt atttcaatt actccaaaa 
      aggacatca gatccttgt cgttctttt acaagatct 
      gtaacattt tcggtatcg tccccccgt acagtttcg 
      agaaacctg actcgcaaa aatccctct ggaaaaaaa 
      tccaaggtg ttgtcctgg tgtcaatca tcgcagcag 
      ggaccgcat attcgattt acgtccggc atacatact 
      accgaagat tgtacacca taacccact tagtgctag 
      actatctgg acgaatttc taatcgtcg ctttggcct 
      ttcaagtga ttctgaact cgtgttttt gcgatccgg 
      ccaaatgga tccgcttga acaacaatc tccagtaca 
      tagacgaag ttttgaaaa accgcgatt cgcacgaaa 
      cgaatttgt tacgaaacg tctcggtcc agtttttcg 
      tctatgtga ttttgtaca ttttagcga cggtgtttc 
      tagcttatg tgtggattt gcgaaatgg gcgttgtga 
      ccctgcaag cgtacactc tgcacttat tttgtgttt 
      tgtacgtgg ttttgttgc attttctca cctacaacc 
      tgtcgctgg gaattaaat tgagatacg atgatgtga 
      acaatttgt tccgaattg aggagagtg aggagaaaa 
      acatcatag tctcgttga gacaaatcg ggagtcttt 
      cgcaacttt tgagcgaga ccgtggcac tttttaacg 
      acgtcttcg ggacttgtc tcattctca tcaccggga 
      aaagtatag tccagcttc tgacgtgtc tcaacttta 
      tcacgaata atttaaaat cggaaaatg aggagttca 
      aagaaaaat tactagccg cgaatttgt gcctagtca 
      tctatactt tggtttctg taagtctag ttatggtca 
      cttgtgacg cttgtacga tcgcaagca aacaaacca 
      tttcctggt gttacaaat tgcaagaac agtttgtta 
      caaattcag aagtacgca cagaattgt tcaaactag 
      cccagcacg tgtcagcta acatcgtcc atattactg 
      ccggaaact acttcgaaa taaataaag ccaccctgt 
      gtggaattt ttgggacca caaccacct atttcattg 
      ttattttgc agttcaatc aaagctcag ctaaataaa 
      aatcatttg ggacaaaaa cttttttta taaattaca 
      gcgacatat taaattgta tcattatga
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY