Status
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Gene information
General information
TC009395 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_007422.5: 1531092..1532840
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
    TC009395
    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_04628

    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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 40.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


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


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009395 RA
      MYSLTVAFL FASVSSSRI LVIIPTPFY SHQSVFQPL 
      WLELAQKGH QVTAVTANP LKTHLPNLK QIDLSFTYK 
      LVYEDHKMQ HVINTESNL LTLMRHVFV VMNNITTEQ 
      LNHPQVQEL IKSDQEFDL MIVEVHIPA WFGFARKFK 
      CPVIGVTSM DATNHVKRM VGNLNHPVY THHVNLPFG 
      DGLNFWQRV VCVLFELLD EFQTSYLLY PIQEKIIKN 
      ALNDPEINL SEIVKNLTL VFTNIIPGF NKVTTNLPS 
      VVQLNGLQI KPPQVLPLE LGQFLDGAA QGVIYFSLG 
      SNVKSYLIS EDLQQLLLQ VFRDLPFRI VWKFEDEVA 
      NLPQNVKVV TWAPQQDIL RHKNTKLFV TQGGIQSIE 
      EAIRFKVPL LGFPFFGDQ FYNVMRVKK LGIGTWLDF 
      KTLDKEGLK TSILECINN QTYLANLEE IADLLDDPL 
      TSLNRAVWW IEFVLRHRG AQHLRSPLA DVPFYQYYL 
      FDVVFFLVF IVFLTSFVL LKLMRRKVG YKKLKVQ
    CDS sequence
    • >TC009395 RA
      atgtattca ctcactgtg gcgtttctc tttgcttca 
      gtgtccagc agccgtatt ttagtcatc ataccaacc 
      cctttctac agccaccag agtgtgttc caaccccta 
      tggctcgaa ctggcccaa aaaggccac caagtgact 
      gcagtcact gcaaaccct ctcaaaacc cacctcccc 
      aacctcaaa caaatcgac ctaagtttc acctacaag 
      ttggtgtac gaagaccac aaaatgcag cacgtgatc 
      aacaccgaa agcaatctc ctcacactg atgagacac 
      gtgtttgtg gtcatgaac aacatcacc accgagcag 
      ctgaaccat ccccaagtg caagagttg atcaaaagt 
      gaccaagag tttgattta atgattgtg gaagtgcac 
      attccggcg tggtttggc ttcgcgcgc aaattcaag 
      tgcccggtg attggcgtg acgtcgatg gacgccacc 
      aatcacgtc aagcgaatg gtgggcaac ttgaaccac 
      cctgtatac acgcaccat gttaatttg ccgtttgga 
      gacggtttg aatttttgg cagcgagtt gtttgcgtc 
      cttttcgag ttattggac gagtttcaa actagttat 
      ttgttgtac cctatccag gagaaaata ataaagaac 
      gcactgaac gatcccgaa ataaatctt tccgaaatc 
      gtcaaaaat ctcactctg gtgttcacc aacattatc 
      ccaggcttc aataaagta acgacaaac cttccatcg 
      gttgtacaa ctcaacggg ttacagatt aaaccccca 
      caagtgtta ccactcgaa ctgggccag tttttggat 
      ggggcggct caaggagtg atttatttt agtttgggg 
      tcgaatgtt aaaagttat ttgatttcg gaggacttg 
      caacaactc ctcttgcaa gtttttcgt gacttgccg 
      ttcagaatt gtttggaag tttgaggat gaagtcgcg 
      aatttgccc caaaatgtg aaagtggtg acttgggcc 
      ccgcaacaa gatattttg aggcacaaa aacacgaaa 
      ctttttgtt acacaagga gggattcag tcaattgag 
      gaagcgatt cgtttcaag gtgccgctg ttagggttt 
      ccgtttttc ggggaccag ttttataat gttatgagg 
      gttaaaaaa ttagggata gggacgtgg ctcgatttt 
      aaaactttg gataaggag ggacttaaa acttcgatt 
      ttggaatgt attaacaat caaacgtat ttagcaaat 
      cttgaagaa attgctgat ttgcttgat gatcctcta 
      acttcatta aatagagcc gtttggtgg attgagttt 
      gttttgaga catcgtggg gcccaacat ttgcgaagt 
      ccgttagct gatgttccg ttctaccag tattacctt 
      ttcgatgtt gtatttttt ctcgtattt attgttttt 
      ttaaccagt tttgtactt ttaaaactg atgcggcgt 
      aaagtcggt tataagaag ctcaaagta caataa
    mRNA sequence
    • >TC009395 RA
      cgtcacttt agtttgcca aaaatgtat tcactcact 
      gtggcgttt ctctttgct tcagtgtcc agcagccgt 
      attttagtc atcatacca acccctttc tacagccac 
      cagagtgtg ttccaaccc ctatggctc gaactggcc 
      caaaaaggc caccaagtg actgcagtc actgcaaac 
      cctctcaaa acccacctc cccaacctc aaacaaatc 
      gacctaagt ttcacctac aagttggtg tacgaagac 
      cacaaaatg cagcacgtg atcaacacc gaaagcaat 
      ctcctcaca ctgatgaga cacgtgttt gtggtcatg 
      aacaacatc accaccgag cagctgaac catccccaa 
      gtgcaagag ttgatcaaa agtgaccaa gagtttgat 
      ttaatgatt gtggaagtg cacattccg gcgtggttt 
      ggcttcgcg cgcaaattc aagtgcccg gtgattggc 
      gtgacgtcg atggacgcc accaatcac gtcaagcga 
      atggtgggc aacttgaac caccctgta tacacgcac 
      catgttaat ttgccgttt ggagacggt ttgaatttt 
      tggcagcga gttgtttgc gtccttttc gagttattg 
      gacgagttt caaactagt tatttgttg taccctatc 
      caggagaaa ataataaag aacgcactg aacgatccc 
      gaaataaat ctttccgaa atcgtcaaa aatctcact 
      ctggtgttc accaacatt atcccaggc ttcaataaa 
      gtaacgaca aaccttcca tcggttgta caactcaac 
      gggttacag attaaaccc ccacaagtg ttaccactc 
      gaactgggc cagtttttg gatggggcg gctcaagga 
      gtgatttat tttagtttg gggtcgaat gttaaaagt 
      tatttgatt tcggaggac ttgcaacaa ctcctcttg 
      caagttttt cgtgacttg ccgttcaga attgtttgg 
      aagtttgag gatgaagtc gcgaatttg ccccaaaat 
      gtgaaagtg gtgacttgg gccccgcaa caagatatt 
      ttgaggcac aaaaacacg aaacttttt gttacacaa 
      ggagggatt cagtcaatt gaggaagcg attcgtttc 
      aaggtgccg ctgttaggg tttccgttt ttcggggac 
      cagttttat aatgttatg agggttaaa aaattaggg 
      atagggacg tggctcgat tttaaaact ttggataag 
      gagggactt aaaacttcg attttggaa tgtattaac 
      aatcaaacg tatttagca aatcttgaa gaaattgct 
      gatttgctt gatgatcct ctaacttca ttaaataga 
      gccgtttgg tggattgag tttgttttg agacatcgt 
      ggggcccaa catttgcga agtccgtta gctgatgtt 
      ccgttctac cagtattac cttttcgat gttgtattt 
      tttctcgta tttattgtt tttttaacc agttttgta 
      cttttaaaa ctgatgcgg cgtaaagtc ggttataag 
      aagctcaaa gtacaataa atgttagtt ataaaacct 
      gtctttttt tccttgcat acattccct tctgaaaat 
      ggcaaaaag ttttttttt cgtgaaatt ctggcgttc 
      aatccagaa atcagaagc acattattt tcctaaatt 
      tcataaaaa atacgtcca aaaatcact aaattgtgt 
      taaaaatg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY