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Gene information
General information
TC014639 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_007420.3: 12709932..12712163
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
    TC014639
    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_08394

    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: 20.0% (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


    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: < 50
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): less than 30%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    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
    • >TC014639 RA
      MAKFIATIK AIITRLVFA LHGFVAIWQ VTIFKKNYF 
      YWYLSSPIL LLFFEGIFT LTIKENQEW KWFCPSVFL 
      YLASIVPAI WLLELDKVD RRLRVKEET FNLTSNTNL 
      KELNSLIGV QIKLPEIPL STETWITLI EQFLMLILI 
      IGRWMLPKG DLTRDQLSQ LLLVYIGTA ADIIEFFDS 
      FKDDKIASE PLLVLLTLG IWSWSLMQF TVVLTATKS 
      RKSRLTSTG SIINQSDSC CTIDVWGIA LNITLQDAP 
      FLVFRLLLI THFQIISYM NVFFTCKNT LVILLQLYR 
      LYVVYSEHG KRRRPKDDF ELTNISIIS KPDMYGGRK 
      KHKERTKPR KNRAKKVQS EETEDSSEE SSEDRKKKI 
      KNCRKDTGY STGSSHTSV RGHKKSKSR ENKKLKKLK 
      RSDQETRGK RRLEEAFSE ESESDLSPV EKKEEKRAK 
      KTRSYEKEP TISVSTSDA SSE
    CDS sequence
    • >TC014639 RA
      atggcaaaa tttatcgca actattaag gcaataatc 
      acgcggttg gtttttgcg ctgcacggg tttgtggcc 
      atttggcaa gtgaccatt tttaagaaa aactatttt 
      tattggtat ttgagctcg ccgattttg ttgctcttt 
      ttcgaaggg atattcacc ctcactatc aaggaaaac 
      caagaatgg aagtggttc tgtccttct gtttttctc 
      tatttggcg agcattgtt cctgcaatc tggctcttg 
      gagctggac aaagtcgat cgaagatta agagtaaag 
      gaagagacg tttaacttg acttcaaac acaaatcta 
      aaagagcta aacagccta attggggtc caaataaaa 
      ctgccagaa atcccccta agcacggaa acttggatc 
      actctaatc gagcaattt ttaatgcta attctgata 
      atcgggcgt tggatgttg ccgaagggt gacttgaca 
      cgagaccaa ctcagtcag ttgcttcta gtttacatt 
      ggtacggcg gccgatata atagagttt tttgattct 
      ttcaaagac gataaaatc gcatcggag ccgcttcta 
      gtattgtta acgttaggg atttggtct tggagcttg 
      atgcagttt actgttgtt ttgacggcc acaaagtca 
      agaaaatcg cgacttacg tcgaccggt tctataatt 
      aatcagtcc gacagttgc tgcaccatc gatgtgtgg 
      ggaattgca ctcaatatc acgcttcag gacgctcca 
      tttttggtg ttccgcctt ttattaata acgcacttc 
      caaataatc tcctacatg aacgtgttt ttcacgtgc 
      aagaacacc ctagtcatt cttttgcag ctgtacaga 
      ctctacgtc gtctacagc gagcatggc aaacgccgg 
      cgaccaaaa gacgatttc gagttgacc aacatttcg 
      attatttcc aaacccgac atgtacgga ggccggaaa 
      aagcacaaa gagagaact aaaccgagg aaaaatcgg 
      gcgaagaaa gtccagtca gaggagacc gaagattcg 
      agcgaggaa tcgtccgag gacaggaaa aaaaaaatt 
      aaaaactgt cggaaggac acgggttat tcgactggg 
      agttcccac accagcgtc cggggtcac aagaagtca 
      aaaagtcgg gaaaataag aaactgaag aaactcaaa 
      cgttccgac caggagacc agggggaaa aggcggcta 
      gaagaagca ttttccgag gaaagtgaa agcgacttg 
      tcgccggtc gagaaaaag gaggaaaaa cgggcgaag 
      aagacccga agttatgag aaagaaccg acaatttcg 
      gtgtctaca agcgacgcg tcatcggaa tga
    mRNA sequence
    • >TC014639 RA
      tcaaatcgc ttttctggt gcatgcgta aaaaggggt 
      gcaagtttg aaatgtgtg ttgttttgg ggtagacca 
      gaatatggc aaaatttat cgcaactat taaggcaat 
      aatcacgcg gttggtttt tgcgctgca cgggtttgt 
      ggccatttg gcaagtgac catttttaa gaaaaacta 
      tttttattg gtatttgag ctcgccgat tttgttgct 
      ctttttcga agggatatt caccctcac tatcaagga 
      aaaccaaga atggaagtg gttctgtcc ttctgtttt 
      tctctattt ggcgagcat tgttcctgc aatctggct 
      cttggagct ggacaaagt cgatcgaag attaagagt 
      aaaggaaga gacgtttaa cttgacttc aaacacaaa 
      tctaaaaga gctaaacag cctaattgg ggtccaaat 
      aaaactgcc agaaatccc cctaagcac ggaaacttg 
      gatcactct aatcgagca atttttaat gctaattct 
      gataatcgg gcgttggat gttgccgaa gggtgactt 
      gacacgaga ccaactcag tcagttgct tctagttta 
      cattggtac ggcggccga tataataga gttttttga 
      ttctttcaa agacgataa aatcgcatc ggagccgct 
      tctagtatt gttaacgtt agggatttg gtcttggag 
      cttgatgca gtttactgt tgttttgac ggccacaaa 
      gtcaagaaa atcgcgact tacgtcgac cggttctat 
      aattaatca gtccgacag ttgctgcac catcgatgt 
      gtggggaat tgcactcaa tatcacgct tcaggacgc 
      tccattttt ggtgttccg ccttttatt aataacgca 
      cttccaaat aatctccta catgaacgt gtttttcac 
      gtgcaagaa caccctagt cattctttt gcagctgta 
      cagactcta cgtcgtcta cagcgagca tggcaaacg 
      ccggcgacc aaaagacga tttcgagtt gaccaacat 
      ttcgattat ttccaaacc cgacatgta cggaggccg 
      gaaaaagca caaagagag aactaaacc gaggaaaaa 
      tcgggcgaa gaaagtcca gtcagagga gaccgaaga 
      ttcgagcga ggaatcgtc cgaggacag gaaaaaaaa 
      aattaaaaa ctgtcggaa ggacacggg ttattcgac 
      tgggagttc ccacaccag cgtccgggg tcacaagaa 
      gtcaaaaag tcgggaaaa taagaaact gaagaaact 
      caaacgttc cgaccagga gaccagggg gaaaaggcg 
      gctagaaga agcattttc cgaggaaag tgaaagcga 
      cttgtcgcc ggtcgagaa aaaggagga aaaacgggc 
      gaagaagac ccgaagtta tgagaaaga accgacaat 
      ttcggtgtc tacaagcga cgcgtcatc ggaatgacg 
      ccaccaatt ggccataat ggctatttt ttgccttta 
      cttatttat ttttatatg ctgtctatt ttttatata 
      ttgcgggat taattccga aggtctagt catagctaa 
      agtttacaa gaagaataa tactcacca ctgaat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY