Status
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Gene information
General information
TC005951 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_007423.3: 4946870..4949762
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
    TC005951
    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_04043

    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


    Fertility
    ovary without detectable defects - Number of animals showing the phenotype: 4
    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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (22 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005951 RA
      MTLPRSEAA ITDLPNAYH SRKNGRQLG GYKKGRWRR 
      NSHSCQFGD TVILLIYST SLTHSQKTT IAMATLGLL 
      VKTELKKPS ISAIALNRS NYHTLKKYQ KCYKLLGIY 
      KDDKELRTS QIATVGHRE AAPEPRNEF SEIAGALKL 
      FINANKKSR REEKENYKN PLQIKKKQF PKIRATQAA 
      ENVVKHRVS KISAEKNEQ NDNSMFLPF SKKKFGLER 
      TVEEMIQES ISKGEFKNL PGFGKPLPD NDIRNPYVD 
      FVTHRLNEV LIDNGCTPK WITLQKEIR EEIQTLKES 
      LAKARARFG PYPLDKQES AQWEQAVLD FQKTTEQVN 
      KKIRNFNLL VPIIEKQMF QVDLKRQAE KVLLNGKFR 
      KPVVEPVQR QRSDIFDFL DVLFK
    CDS sequence
    • >TC005951 RA
      atgacactc ccccgcagt gaggccgcg atcacggac 
      ttgccaaat gcttatcat tcgagaaaa aatggccga 
      cagttgggg ggctataag aaggggcga tggcgacgg 
      aacagtcac tcttgtcag tttggtgac acagtgatc 
      ttacttatt tactcaacc agtctgaca catagtcaa 
      aaaaccacc atcgcaatg gccactttg ggacttttg 
      gttaaaacc gagttgaaa aaaccctca atttccgca 
      atcgcactc aaccgcagc aactaccac actttgaag 
      aagtaccaa aaatgctac aaactcctg ggaatctac 
      aaagacgac aaggagctc agaacctcg caaattgca 
      accgttggc caccgggaa gccgctcca gagccccgt 
      aacgaattc tccgagatc gcaggcgct ttgaaactt 
      ttcatcaac gctaacaag aaatctcgc cgcgaggag 
      aaagaaaat tacaagaac cctctccag atcaaaaag 
      aagcaattc cccaagatc cgcgcaact caggccgcc 
      gagaacgtg gtgaagcac cgcgtgtcc aaaatctca 
      gccgagaag aacgagcag aacgacaac agcatgttc 
      ttgccgttt tcgaagaag aagtttggc ttggaacgc 
      actgttgaa gagatgatc caggagtcg atttccaag 
      ggcgagttc aagaacctg cccggcttc gggaagccg 
      ctgcctgac aacgacatc aggaacccc tacgtggac 
      tttgtgacc catcgcttg aacgaggtt ttgatcgat 
      aacgggtgc acgcccaag tggatcacg ctccagaag 
      gagatccgg gaggagatc cagaccctg aaggagtcg 
      ctggcgaag gccagggcc aggttcggg ccctaccct 
      ctggacaag caggagagc gcgcagtgg gagcaggct 
      gtgctcgac ttccagaag accaccgag caagtcaac 
      aagaaaatc cgcaacttc aatctgttg gtgcccatt 
      attgagaag cagatgttc caagtggat ttgaagagg 
      caggccgag aaggtgctg ctcaatggc aagttcagg 
      aagccggtg gtggagccg gtgcagagg cagagatct 
      gacattttc gattttctc gacgttttg tttaagtaa
    mRNA sequence
    • >TC005951 RA
      gaaagcttc accatatac ccagtgtcc caaaaaaaa 
      tcactcggt atcgaaatc tcgagccaa agtccggca 
      ttattccca ttatgttta ttatgatta ttatcagat 
      gcagatgtt accagtttt cgaaattcc ggattcacc 
      caattagag cacagtcgt gcgcttatc gggggtcag 
      gggtcccag ccatcgcgg gcaaaaaag gggttttcg 
      taatgacac tcccccgca gtgaggccg cgatcacgg 
      acttgccaa atgcttatc attcgagaa aaaatggcc 
      gacagttgg ggggctata agaaggggc gatggcgac 
      ggaacagtc actcttgtc agtttggtg acacagtga 
      tcttactta tttactcaa ccagtctga cacatagtc 
      aaaaaacca ccatcgcaa tggccactt tgggacttt 
      tggttaaaa ccgagttga aaaaaccct caatttccg 
      caatcgcac tcaaccgca gcaactacc acactttga 
      agaagtacc aaaaatgct acaaactcc tgggaatct 
      acaaagacg acaaggagc tcagaacct cgcaaattg 
      caaccgttg gccaccggg aagccgctc cagagcccc 
      gtaacgaat tctccgaga tcgcaggcg ctttgaaac 
      ttttcatca acgctaaca agaaatctc gccgcgagg 
      agaaagaaa attacaaga accctctcc agatcaaaa 
      agaagcaat tccccaaga tccgcgcaa ctcaggccg 
      ccgagaacg tggtgaagc accgcgtgt ccaaaatct 
      cagccgaga agaacgagc agaacgaca acagcatgt 
      tcttgccgt tttcgaaga agaagtttg gcttggaac 
      gcactgttg aagagatga tccaggagt cgatttcca 
      agggcgagt tcaagaacc tgcccggct tcgggaagc 
      cgctgcctg acaacgaca tcaggaacc cctacgtgg 
      actttgtga cccatcgct tgaacgagg ttttgatcg 
      ataacgggt gcacgccca agtggatca cgctccaga 
      aggagatcc gggaggaga tccagaccc tgaaggagt 
      cgctggcga aggccaggg ccaggttcg ggccctacc 
      ctctggaca agcaggaga gcgcgcagt gggagcagg 
      ctgtgctcg acttccaga agaccaccg agcaagtca 
      acaagaaaa tccgcaact tcaatctgt tggtgccca 
      ttattgaga agcagatgt tccaagtgg atttgaaga 
      ggcaggccg agaaggtgc tgctcaatg gcaagttca 
      ggaagccgg tggtggagc cggtgcaga ggcagagat 
      ctgacattt tcgattttc tcgacgttt tgtttaagt 
      aagctagtt tagtgtgtt tcgaagggt acttaatgg 
      aattatttg gtatcaatt gattttcga tttaattgg 
      taccattta attccattt cggaatttt cgaaatgtt 
      catgtgata atacttgtg tattattag ttaattttc 
      tcttagaaa aattgtttt tgtttcgac aaaattgta 
      taaaacgtt tcaagactt ggcattttt ttacaaaaa 
      gtgcacaag ctttcggtc tggtttttt aaatattta 
      tttttgtat tatttttta aagttattt atgctgtgg 
      tatgtaaga tatccgcga tgattcttt cgttctcac 
      gaaactctt gcctgtatt ttatcaaat acactttat 
      ttgtaacgt tcttgcctt ggaaaaata aagaaaaag 
      taaatta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY