Status
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Gene information
General information
TC005906 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: 5775250..5777705
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
    TC005906
    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
    {{ goGene }}
    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_04034

    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: 0.0% (includes death as pupa, adult)

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005906 RA
      MNKDLSVCI LLFCAVLQA HTDNQTVQY YVDLISEAY 
      ENGLTYVFP TSAYEYYSD TIPKRAAGS VAASRLSEI 
      NKWSVLVLE AGTFWNNFS DIPNMYEPI AFTHFNWEF 
      NSTPQTTAC LGVGGSTLI NGLVYARGH KSDFDKWGK 
      VAGNRRWSY ETVLKYFKK SENFVYRDA DAPYEPPYH 
      GEGGDLQVE YHLPRSPQL NAWLEANRE LGYEIVDYN 
      ANRLGASPS QLNTRNGRR DDDGQAFLR HARKRRNLK 
      ILTGSYVTK IQIEKESAN GVEFTHKGK NYYVEVRKE 
      VILSAGVFG TPQILMLSG VGPRKHLEE KGIEVIKDL 
      EVGSTLRDN PTFYGLNYG TNYTEPIRP LADYVKEYL 
      NGVGPLAIP GSTQGVGFY ESSYSKGTG IPDIELMIA 
      VANATDQLT QRYFSLTDQ TYEDVWKYN NIPQTFIFH 
      VVNLHAQSS GSVRLKSKN PFEYPVINS NFLSDPESR 
      DINTLYEGI QICLKMGET KAMKAINAT LQGGPLRAC 
      KRYQYLSKD YWYCVLRQI TVNLYHPLG SCPMGKDPK 
      KGAVVDSEL RVFGIKKLR VADASVFPF ALAGHPNAP 
      TVMVGEQLG DLVKRAHGV DGNLIA
    CDS sequence
    • >TC005906 RA
      atgaacaaa gacctgtcc gtttgtatt ctactgttc 
      tgtgctgtt ctgcaagca cacacagac aaccaaacc 
      gtacagtat tacgttgat ttaatttca gaagcttat 
      gaaaatggt ctaacgtac gtattcccc actagcgct 
      tatgaatat tactctgat acgatcccc aaaagggcc 
      gctggttca gtcgccgcc agtcgctta agcgaaata 
      aacaaatgg agcgtttta gtcctcgaa gcaggaaca 
      ttttggaac aatttctcc gacattcca aacatgtac 
      gaaccgatc gcattcacc catttcaac tgggaattc 
      aacagcacc cctcaaacc accgcctgc ttgggcgtc 
      gggggctca accctaatc aacggcttg gtgtacgcc 
      cgaggccac aaaagcgac ttcgacaag tggggcaaa 
      gtggccgga aacaggcgc tggtcgtac gaaaccgtt 
      ttaaagtac ttcaaaaag tcggaaaat ttcgtatat 
      cgggacgct gacgcgccc tacgagccc ccatatcac 
      ggggaaggg ggcgatttg caggtggag taccacctg 
      ccaaggagt ccacagctg aatgcgtgg cttgaggct 
      aatagagaa ctggggtac gaaattgtt gattacaat 
      gccaatcga ctgggggct tccccttca cagttgaat 
      acaaggaat gggcggagg gatgacgat ggacaggcg 
      tttttacga cacgctagg aaacgacgc aatttgaag 
      attttgacc gggagttac gttacgaag attcaaata 
      gagaaagaa agtgcaaat ggggtcgag ttcacacac 
      aaggggaag aattattac gtggaggtg cgaaaggaa 
      gtgattctt tcagctggg gtgttcggg acgccccaa 
      attttgatg ttgtcgggc gttgggcct agaaaacac 
      cttgaagaa aaaggaatt gaagtaatc aaggattta 
      gaagttgga agtacgcta cgtgataat ccaactttt 
      tacggtcta aactacgga acgaattac actgaaccg 
      attcggcct ttggctgat tacgttaag gagtatttg 
      aacggtgtt ggccctttg gcaatcccg ggaagtacc 
      caaggagtg ggtttttac gaatcaagt tactccaaa 
      ggtacggga atccccgac attgaatta atgatcgca 
      gtggccaat gcaacagac cagctaaca caaaggtac 
      tttagtctc actgatcaa acgtatgaa gacgtttgg 
      aagtacaat aacatcccc caaactttc atcttccac 
      gttgttaat ttacacgcg caatcgtcg gggagtgtc 
      agacttaaa agtaaaaac ccctttgaa taccccgtg 
      atcaattcg aatttttta tcagatcct gaaagtcgg 
      gacattaac actttgtac gaaggcata caaatttgt 
      ctgaaaatg ggcgaaact aaagcaatg aaggccatc 
      aatgcaacg ttgcaagga gggccctta agggcgtgc 
      aaaagatat caatatttg tccaaggac tattggtat 
      tgtgttctg agacagatt actgtgaac ctttaccac 
      cctttgggg agttgtccg atggggaag gatccgaaa 
      aaaggggca gttgtggat tcggaattg agggttttt 
      gggataaag aagttaagg gttgcggat gcaagtgtt 
      tttccgttt gcgttagcg gggcatccg aatgcgccg 
      actgttatg gtgggagag cagttgggg gatttggtc 
      aaaagggcc catggggtc gatggtaat ttgattgct 
      tga
    mRNA sequence
    • >TC005906 RA
      caatcatga acaaagacc tgtccgttt gtattctac 
      tgttctgtg ctgttctgc aagcacaca cagacaacc 
      aaaccgtac agtattacg ttgatttaa tttcagaag 
      cttatgaaa atggtctaa cgtacgtat tccccacta 
      gcgcttatg aatattact ctgatacga tccccaaaa 
      gggccgctg gttcagtcg ccgccagtc gcttaagcg 
      aaataaaca aatggagcg ttttagtcc tcgaagcag 
      gaacatttt ggaacaatt tctccgaca ttccaaaca 
      tgtacgaac cgatcgcat tcacccatt tcaactggg 
      aattcaaca gcacccctc aaaccaccg cctgcttgg 
      gcgtcgggg gctcaaccc taatcaacg gcttggtgt 
      acgcccgag gccacaaaa gcgacttcg acaagtggg 
      gcaaagtgg ccggaaaca ggcgctggt cgtacgaaa 
      ccgttttaa agtacttca aaaagtcgg aaaatttcg 
      tatatcggg acgctgacg cgccctacg agcccccat 
      atcacgggg aagggggcg atttgcagg tggagtacc 
      acctgccaa ggagtccac agctgaatg cgtggcttg 
      aggctaata gagaactgg ggtacgaaa ttgttgatt 
      acaatgcca atcgactgg gggcttccc cttcacagt 
      tgaatacaa ggaatgggc ggagggatg acgatggac 
      aggcgtttt tacgacacg ctaggaaac gacgcaatt 
      tgaagattt tgaccggga gttacgtta cgaagattc 
      aaatagaga aagaaagtg caaatgggg tcgagttca 
      cacacaagg ggaagaatt attacgtgg aggtgcgaa 
      aggaagtga ttctttcag ctggggtgt tcgggacgc 
      cccaaattt tgatgttgt cgggcgttg ggcctagaa 
      aacaccttg aagaaaaag gaattgaag taatcaagg 
      atttagaag ttggaagta cgctacgtg ataatccaa 
      ctttttacg gtctaaact acggaacga attacactg 
      aaccgattc ggcctttgg ctgattacg ttaaggagt 
      atttgaacg gtgttggcc ctttggcaa tcccgggaa 
      gtacccaag gagtgggtt tttacgaat caagttact 
      ccaaaggta cgggaatcc ccgacattg aattaatga 
      tcgcagtgg ccaatgcaa cagaccagc taacacaaa 
      ggtacttta gtctcactg atcaaacgt atgaagacg 
      tttggaagt acaataaca tcccccaaa ctttcatct 
      tccacgttg ttaatttac acgcgcaat cgtcgggga 
      gtgtcagac ttaaaagta aaaacccct ttgaatacc 
      ccgtgatca attcgaatt ttttatcag atcctgaaa 
      gtcgggaca ttaacactt tgtacgaag gcatacaaa 
      tttgtctga aaatgggcg aaactaaag caatgaagg 
      ccatcaatg caacgttgc aaggagggc ccttaaggg 
      cgtgcaaaa gatatcaat atttgtcca aggactatt 
      ggtattgtg ttctgagac agattactg tgaaccttt 
      accaccctt tggggagtt gtccgatgg ggaaggatc 
      cgaaaaaag gggcagttg tggattcgg aattgaggg 
      tttttggga taaagaagt taagggttg cggatgcaa 
      gtgtttttc cgtttgcgt tagcggggc atccgaatg 
      cgccgactg ttatggtgg gagagcagt tgggggatt 
      tggtcaaaa gggcccatg gggtcgatg gtaatttga 
      ttgcttgat tttgaataa aaaccaaac ctcaaacaa 
      tcatccatt ttatacgaa tactctgaa aaaactcgt 
      agtgtgtct ttgattaca ctttcaatt ttttacaat 
      ggtggatgc gccgggtca acctatgaa attgacacc 
      aatcagtgc aaaaaataa gaataaaag aaaaaatct 
      gta
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