Status
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Gene information
General information
TC003564 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_007418.3: 7559969..7572196
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
    TC003564
    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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    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_03580

    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)

    Fertility
    mature egg deposition blocked number 1st lateral oviduct: >5 number 2nd lateral oviduct: - Number of animals showing the phenotype: 4
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 20 thorax musculature specific subset dorsal partiallyrounded - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    thorax musculature specific subset partially dorsalnot present - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 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: 100.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 10 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC003564 RA
      MPPQEKMPE TGSSQECES QLEMQCNGY TNGAFVPDN 
      VKEEKKDEK DEKGFEFDD LLPRIGEFG MYQKILFLM 
      MIPFSFFVA WVYFTQIFI TIIPEQHWC WVPELANMT 
      VDERIALAI PRDSDGSLE KCQMYDVNF EEVVRNKIP 
      VNTSWPTTS CKNGWEYNY TEVPYSSIA TEQNWVCEN 
      SALPHTAQS IFFCGAILG GLVFGWIAD RFGRIPALV 
      GTNLVGFVG GIATAFCSA FWTFCLCRF LVGMAFDNC 
      FTMMYILVL EYVGPKWRT FVANMSIAI FFTFAASIL 
      PWIAYYLAD WKMLCYVTS APLVLAIVT PWLVPESAR 
      WLVSQGKFD KAIGILRKF QRINKTKVE EETYNKFKA 
      SCLKTQKEE EMDKAYTVL DLFKTPRLR KITLLLIVM 
      WMAISLVFD GHVRNVGSL GLDIFLTFT IASATEFPA 
      DTFLTLVLD VWGRRWLAC GSMVLSGIF SLLATTVPY 
      GVPSAALAI MGRFAVNIS YNIGLQYAA ELLPTVVRA 
      QGVALIHIM GYVASILAP FVVYLANIS VDLPLLILG 
      VLGIVGGIL ALFLPETLD QELPQTLQD GENFGMGQK 
      IWDFPCAKK SVDDDKGGE FRRSSSRRS SLRASFRGE 
      IRSSMINRS SIRSRKSIC IPENQIA
    CDS sequence
    • >TC003564 RA
      atgccgccc caggagaag atgcccgag acgggctcc 
      agccaggag tgcgagagc caattggag atgcaatgc 
      aacggatac acaaacggc gctttcgtc cccgataac 
      gtcaaggag gagaaaaag gacgaaaag gacgagaaa 
      ggattcgag ttcgatgac ttgctgccg cgtatcggc 
      gagttcggg atgtaccag aagatcctc tttctgatg 
      atgattccc ttctcgttt ttcgtggct tgggtctat 
      tttacacag atctttatt accattata ccggagcag 
      cattggtgc tgggtccct gaacttgcc aatatgacg 
      gtggacgaa aggatagct ctggccatt ccgcgggac 
      agcgacggc tcgctggaa aaatgccaa atgtacgac 
      gtgaatttt gaggaagtg gtgcgaaat aaaattccc 
      gttaacaca tcctggccg acgacttcc tgcaaaaat 
      ggctgggaa tataattac actgaagtt ccctattcg 
      tcgatcgcg acagagcaa aactgggtt tgcgaaaac 
      tcggctttg ccccacacc gctcagtca atttttttc 
      tgtggagcc atccttggc ggcttggtc ttcggctgg 
      attgctgac cgattcggc cgaatccct gctcttgtg 
      gggacaaac ctcgtgggt ttcgtcgga ggaatcgct 
      acagctttc tgtagcgcg ttctggacg ttctgcctc 
      tgcaggttc ttggtcggg atggctttc gacaactgc 
      ttcacaatg atgtacatt ctggtattg gagtacgtg 
      ggcccgaaa tggaggacc ttcgtggcc aacatgtcc 
      attgcaatt ttcttcacg tttgcagct tcgattttg 
      ccttggatt gcttattat ttagccgat tggaaaatg 
      ctgtgttac gtcacttcg gcccctctg gtactcgcc 
      attgtcacg ccctggctg gtaccggaa tccgcaagg 
      tggctagtg tctcaaggc aaatttgac aaagccatc 
      ggcatccta cggaaattc caaagaatc aataaaacc 
      aaagtcgag gaagaaaca tacaacaaa ttcaaagcc 
      agctgtttg aaaacccaa aaagaggag gaaatggac 
      aaggcctac acagtcctg gacttgttc aaaacgccc 
      cgtttgcgc aaaatcact cttttgttg atcgtcatg 
      tggatggcc atttccttg gtgtttgac ggccatgtg 
      cggaacgtg ggctcgctg ggtttggac attttcctg 
      acttttacc atcgcaagc gccacggaa ttcccagct 
      gacaccttc ctgactctg gtgctggac gtctggggc 
      cggcgatgg ttggcttgt gggtccatg gtcctgagc 
      ggaatcttc agtcttctt gccacgaca gtgccctat 
      ggagtccct tcagccgcg ctggccatc atgggccga 
      tttgcagtt aacatttcc tacaacatt gggctccaa 
      tacgccgct gagctgctg cccaccgtt gtgagggcc 
      caaggagtg gccctgatc cacataatg ggctacgtt 
      gcgagcatt ctggcgccg tttgttgtc tacttggcg 
      aacatttcg gtcgacttg cctcttttg attttgggg 
      gttttgggc attgtcggg ggaatcttg gcgctcttt 
      ctgccggaa actttggac caagagtta ccacaaaca 
      ctgcaggat ggggaaaac ttcgggatg gggcagaag 
      atttgggac ttcccgtgt gctaaaaag agtgttgac 
      gatgataaa gggggagag tttaggagg tcgtcttcg 
      aggaggtca tcattgcga gcgtctttc aggggggag 
      attagatcg agtatgatc aacaggtcc tcgattcgt 
      tcacgaaaa tccatttgt attcccgaa aaccaaatc 
      gcttga
    mRNA sequence
    • >TC003564 RA
      tttagtcca aatcatcgt cggttagga tttacctcg 
      cagggggtt agcctgacc gaagctccg gtgaagtga 
      gtggtttgt gtccaagtg tctcagaat gccgcccca 
      ggagaagat gcccgagac gggctccag ccaggagtg 
      cgagagcca attggagat gcaatgcaa cggatacac 
      aaacggcgc tttcgtccc cgataacgt caaggagga 
      gaaaaagga cgaaaagga cgagaaagg attcgagtt 
      cgatgactt gctgccgcg tatcggcga gttcgggat 
      gtaccagaa gatcctctt tctgatgat gattccctt 
      ctcgttttt cgtggcttg ggtctattt tacacagat 
      ctttattac cattatacc ggagcagca ttggtgctg 
      ggtccctga acttgccaa tatgacggt ggacgaaag 
      gatagctct ggccattcc gcgggacag cgacggctc 
      gctggaaaa atgccaaat gtacgacgt gaattttga 
      ggaagtggt gcgaaataa aattcccgt taacacatc 
      ctggccgac gacttcctg caaaaatgg ctgggaata 
      taattacac tgaagttcc ctattcgtc gatcgcgac 
      agagcaaaa ctgggtttg cgaaaactc ggctttgcc 
      ccacaccgc tcagtcaat ttttttctg tggagccat 
      ccttggcgg cttggtctt cggctggat tgctgaccg 
      attcggccg aatccctgc tcttgtggg gacaaacct 
      cgtgggttt cgtcggagg aatcgctac agctttctg 
      tagcgcgtt ctggacgtt ctgcctctg caggttctt 
      ggtcgggat ggctttcga caactgctt cacaatgat 
      gtacattct ggtattgga gtacgtggg cccgaaatg 
      gaggacctt cgtggccaa catgtccat tgcaatttt 
      cttcacgtt tgcagcttc gattttgcc ttggattgc 
      ttattattt agccgattg gaaaatgct gtgttacgt 
      cacttcggc ccctctggt actcgccat tgtcacgcc 
      ctggctggt accggaatc cgcaaggtg gctagtgtc 
      tcaaggcaa atttgacaa agccatcgg catcctacg 
      gaaattcca aagaatcaa taaaaccaa agtcgagga 
      agaaacata caacaaatt caaagccag ctgtttgaa 
      aacccaaaa agaggagga aatggacaa ggcctacac 
      agtcctgga cttgttcaa aacgccccg tttgcgcaa 
      aatcactct tttgttgat cgtcatgtg gatggccat 
      ttccttggt gtttgacgg ccatgtgcg gaacgtggg 
      ctcgctggg tttggacat tttcctgac ttttaccat 
      cgcaagcgc cacggaatt cccagctga caccttcct 
      gactctggt gctggacgt ctggggccg gcgatggtt 
      ggcttgtgg gtccatggt cctgagcgg aatcttcag 
      tcttcttgc cacgacagt gccctatgg agtcccttc 
      agccgcgct ggccatcat gggccgatt tgcagttaa 
      catttccta caacattgg gctccaata cgccgctga 
      gctgctgcc caccgttgt gagggccca aggagtggc 
      cctgatcca cataatggg ctacgttgc gagcattct 
      ggcgccgtt tgttgtcta cttggcgaa catttcggt 
      cgacttgcc tcttttgat tttgggggt tttgggcat 
      tgtcggggg aatcttggc gctctttct gccggaaac 
      tttggacca agagttacc acaaacact gcaggatgg 
      ggaaaactt cgggatggg gcagaagat ttgggactt 
      cccgtgtgc taaaaagag tgttgacga tgataaagg 
      gggagagtt taggaggtc gtcttcgag gaggtcatc 
      attgcgagc gtctttcag gggggagat tagatcgag 
      tatgatcaa caggtcctc gattcgttc acgaaaatc 
      catttgtat tcccgaaaa ccaaatcgc ttgaaattg 
      atgattcag tattttctg cgtgataag catacgtgg 
      tgtgcgtac aattgtaga tggttgacc atctgtttg 
      tctgtggta ttactttta gaacgtact gtatataat 
      ccatgtaga tagttgtat tttaattgt ttttgtata 
      aaaatacta ttttaaatt acagctagt gtgttttaa 
      agtgccttt atctcaatg atttgaatt ttattttta 
      aaacataag atacgattt tttatgttt gtaagttgg 
      aatgtaatc ctaaagttc ctaataaaa tatttatcg 
      aaaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY