Status
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Gene information
General information
TC005859 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: 6294462..6327152
Sequence information
Transcripts / Proteins (2) 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
    TC005859
    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_10719

    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)

    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: < 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: % (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
    • >TC005859 RA
      MREVDAVKL RGFETPRNG TVAPSCGVM 
      TDWDQMFVR SLAKPPACR SLQDLQVIY 
      YGLSGLEAL QTLRDSALR AFCKVVRYE 
      KHQANDVLY YTGELSTCW YILLSGSVF 
      IDGSMFLPR SR
    • >TC005859 RB
      MREVDAVKL RGFETPRNG TVAPSCGVM 
      TDWDQMFVR SLAKPPACR SLQDLQVIY 
      YGLSGLEAL QTLRDSALR AFCKVVRYE 
      KHQANDVLY YTGELSTCW YILLSGSVF 
      IDGSMFLPR SRILKKVQS AAGSKRCTF 
      IMLVSSRKN NGSTTNPQN KNYRIFKPQ 
      RHTLSA
    CDS sequence
    • >TC005859 RA
      atgcgcgaa gtggacgcg gtaaagtta cgaggcttt 
      gaaacgcct cgaaatggt acggtggcg ccatcgtgc 
      ggcgtcatg acagactgg gaccagatg tttgtgagg 
      tcgcttgcc aaaccgccg gcatgcaga tccctgcaa 
      gacctacaa gtgatttat tacggactc agcggcttg 
      gaggcgctg caaacactg agagattcg gctttgcgc 
      gcgttttgc aaagttgta cgatatgag aagcatcag 
      gccaacgac gttttgtac tatacggga gagctgtca 
      acatgttgg tacatcctc ctctccggc tccgtcttc 
      atcgacggc tccatgttc ttgcctcgt tccaggtaa
    • >TC005859 RB
      atgcgcgaa gtggacgcg gtaaagtta cgaggcttt 
      gaaacgcct cgaaatggt acggtggcg ccatcgtgc 
      ggcgtcatg acagactgg gaccagatg tttgtgagg 
      tcgcttgcc aaaccgccg gcatgcaga tccctgcaa 
      gacctacaa gtgatttat tacggactc agcggcttg 
      gaggcgctg caaacactg agagattcg gctttgcgc 
      gcgttttgc aaagttgta cgatatgag aagcatcag 
      gccaacgac gttttgtac tatacggga gagctgtca 
      acatgttgg tacatcctc ctctccggc tccgtcttc 
      atcgacggc tccatgttc ttgcctcgt tccaggata 
      ttgaaaaag gtgcaatct gccgctgga tctaagcgt 
      tgcactttt atcatgttg gtgtctagc agaaaaaat 
      aatggcagt accaccaac ccccaaaac aaaaattac 
      cgcattttc aaaccccag cgtcacaca ttaagcgca 
      taa
    mRNA sequence
    • >TC005859 RA
      tagttggtt tcatgtgtg tttgtggaa taagtttac 
      ctgccttcg aagctttgt ttatatgct tgaggtgaa 
      cgagtgttg tgccctttt ttccccgga ttaaaactc 
      aaaatgtga ctgagtccg taacccgtc actgaaacc 
      ccgcaatta aaatggaat cagcaacag cgaacaaag 
      accaaaatc tctcccatc ttgcgccaa ctccgaccg 
      tgggatcca tcgaaaaag cttacgttt ttttgattt 
      tgtgacgta aaaagtgac atcatttga ataagtgta 
      gcaaaaaaa agagtgctc aatgcgcga agtggacgc 
      ggtaaagtt acgaggctt tgaaacgcc tcgaaatgg 
      tacggtggc gccatcgtg cggcgtcat gacagactg 
      ggaccagat gtttgtgag gtcgcttgc caaaccgcc 
      ggcatgcag atccctgca agacctaca agtgattta 
      ttacggact cagcggctt ggaggcgct gcaaacact 
      gagagattc ggctttgcg cgcgttttg caaagttgt 
      acgatatga gaagcatca ggccaacga cgttttgta 
      ctatacggg agagctgtc aacatgttg gtacatcct 
      cctctccgg ctccgtctt catcgacgg ctccatgtt 
      cttgcctcg ttccaggta agtagtgtg ggatccttc 
      aatatcctt gatatttgg cataagtgg gacggaaac 
      aaaagcaac ttaggtaat aatggtcgg aattcgtca 
      gacaggtgg tctaatgaa agttaatgg caaaaccta 
      cacttttaa catttattt cgcatcacg ttgcagtac 
      ctacgtgcc ggataattt ttccacctc taaataata 
      atgttatcg taat
    • >TC005859 RB
      tagttggtt tcatgtgtg tttgtggaa taagtttac 
      ctgccttcg aagctttgt ttatatgct tgaggtgaa 
      cgagtgttg tgccctttt ttccccgga ttaaaactc 
      aaaatgtga ctgagtccg taacccgtc actgaaacc 
      ccgcaatta aaatggaat cagcaacag cgaacaaag 
      accaaaatc tctcccatc ttgcgccaa ctccgaccg 
      tgggatcca tcgaaaaag cttacgttt ttttgattt 
      tgtgacgta aaaagtgac atcatttga ataagtgta 
      gcaaaaaaa agagtgctc aatgcgcga agtggacgc 
      ggtaaagtt acgaggctt tgaaacgcc tcgaaatgg 
      tacggtggc gccatcgtg cggcgtcat gacagactg 
      ggaccagat gtttgtgag gtcgcttgc caaaccgcc 
      ggcatgcag atccctgca agacctaca agtgattta 
      ttacggact cagcggctt ggaggcgct gcaaacact 
      gagagattc ggctttgcg cgcgttttg caaagttgt 
      acgatatga gaagcatca ggccaacga cgttttgta 
      ctatacggg agagctgtc aacatgttg gtacatcct 
      cctctccgg ctccgtctt catcgacgg ctccatgtt 
      cttgcctcg ttccaggat attgaaaaa ggtgcaatc 
      tgccgctgg atctaagcg ttgcacttt tatcatgtt 
      ggtgtctag cagaaaaaa taatggcag taccaccaa 
      cccccaaaa caaaaatta ccgcatttt caaacccca 
      gcgtcacac attaagcgc ataagacaa taattagct 
      cacctgcca ctgacgaaa gtaaaatct ttggtattt 
      aggcccaaa acacgtttt gagttcact gcacatcta 
      atttgacaa ccgaattgt tttacgact tttggggga 
      caccaactg tgacacaca cgaaacgga ccagttcgg 
      gaaagatcg gctcgcgaa aaaaaatcg ttttacact 
      tccgggagt tccggaaaa catccggtc tctaaccct 
      cgtcaaagt tttcgaaaa cccgcacca tacgtaatt 
      aaaatcgga taattagcg gttaaaaag ccgtgtttg 
      tttcacccg aacgtgtcc gaaatgttt cattcgttg 
      ttttgttta gttcgtgca ttctccacg aggacgctg 
      cgccaactg cgaccgctt gagaatttc attctcgtt 
      tcagaaacg tttgttgca tgtctgttt gttgtcggt 
      tgtgtgttt ttggttaga atttgcata aagtggtgt 
      tttggtggt gttttattc gttgcgtgt gtgacttga 
      ggcttgtga cgcaataaa acaatcaaa agttccccc 
      atttatgga ttattttgg atagtacca cgccgggag 
      tctcacaat gggtaaaaa taaccattt attgctcgt 
      ttcgaacta acacaaccc aactctcac gctaatttt 
      atgtaaacg gccgctgaa atcgtcacg tgtgatcaa 
      gtaggcctc gcccgtttg ttttttgtt ttgcgtctc 
      attaacaac aattatagc tgatttgga aattgagga 
      gagcgaaat gcgaccttc aaacagtta ttattccat 
      tcacaacaa caaacaatt gatttgttc gatcaagtg 
      ggcccaaac gtcaaattt gacatttgg ggatagctg 
      gtactgaag atgcacggc cgaaacgtg atataatac 
      aactggccc agaattccg gtacagtta acgtaatca 
      ctcacatta atgcatttt ttacgttcc aatgaatga 
      tggtttaga gtttcacaa aaagttgct tttgcaata 
      aatttaaaa ttgaaagta atcggaatt gcgtttaca 
      aggtcacat taataaata atattaatg aattaaatg 
      acgtacgat gtgagaaca aaagaacga caaatctag 
      tcggcgtgt ctttggggg aaaagttgg cagcgttgc 
      ctgaccaag acaatacct gtcagactg tcgcagcct 
      gctatctcc caacgccac ccttgcgct atctgttaa 
      tttccggta tagagagtg agtcagatt tcgagctgt 
      caatcattg cgttcacac aattacccg atttcacgt 
      gggattttc cgaaattag tcgactgaa ggaaataat 
      taatttgat tagttttaa ttgcacatg aagcttgca 
      acagcagtt gaccccgag tgtgtataa taaatgatt 
      ccaaagatg tcttggtag aaagtaggc gcttcctct 
      ttgacgaca cacttttgt cttgctgtt aatgacagt 
      atcgacaga tgtttcctt ccgttaaat ggccgccgc 
      ttcaggggt ggtttgttt atgttggca acaaactta 
      caaaaaaat acttgtata tgtattata gatagggtt 
      ttttcgata cgttataac agtaggcga gtatagatc 
      gcgttcaac tgtacttcc atgacacgc tctgattgg 
      tactggtgt ttgatgggt attggaaaa acaaaacag 
      aaagaagga tcggaaaga gtaaagact gtggttttg 
      gctttttgt tctcattca cagtaacga cggagtttt 
      atttattaa aataaagcg aataacgtg atctgtggg 
      aaatggaag aaagaataa caaagaaat tgaaaaagc 
      taattgttt gaattagcg taacgctaa taataatga 
      agaagctga cggttggat aatgatata gaaaaagta 
      aaattaaat taaggagaa tttt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY