Status
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Gene information
General information
TC013984 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: 3530969..3534429
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
    TC013984
    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_02233

    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)

    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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): 50% - 80%
    affected eggs/embryos/larvae - 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: % (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
    • >TC013984 RA
      MSDNSDEKG QNDKDDNIC RDYIRGICD RRYCKYKHE 
      TDMKTLNFC HDYQNNICP RPTCKFIHC TPEEEVEYK 
      NTGVMSNHI LAEATRKNQ LPGAQPICN QFRKGLCRR 
      SFCKYRHLT REEEDAEIM ELIQNNNKK NMICVNNPL 
      TESQVMNTL NNGLHRRNP ISYDEYEDC GLQLPKRRF 
      IAAPEPEIL TNGDLHPVE PNRVRPVFK GYFAGNPPP 
      PMLSRVDAR TLMLEEENN MLHKEIAQL KRQVSDLTA 
      TNEFLLDQN ANLRVSNKR NEGVSMPAV TITNTNTPQ 
      VIRTVTASV ATVPVSLAT VSTCNPVSV SIAGVPTVS 
      MAPPAQILA PSQQILVTT NPSTQAQLA IAQQNLANN 
      LAQQAQPQL TSQAQLALA TTTQQLTLA NTQQAQQLA 
      NQQQQLANQ QLTSLANTS QAQLAMASV PQQLLTQNQ 
      QIEMHRNAI NTSQVNAMS NTTQPMVSY PIMTQSINH 
      ALTH
    CDS sequence
    • >TC013984 RA
      atgtccgat aattccgac gaaaagggg caaaacgac 
      aaggacgac aacatctgt agggattac attcggggg 
      atttgtgac cggagatat tgcaagtac aagcacgaa 
      acggacatg aagacgttg aatttttgc cacgattat 
      cagaacaac atttgcccc aggcccacc tgcaaattc 
      atccattgt actccggag gaagaagtc gagtacaaa 
      aacaccgga gtcatgtcg aatcatatt ctggccgaa 
      gcaacacgg aagaatcaa ttacccgga gcccaaccg 
      atttgtaat caattccgg aagggtttg tgcagacgc 
      agcttttgc aagtatcga catttgacc cgcgaggag 
      gaagatgca gaaattatg gaattgata caaaacaat 
      aataagaaa aatatgatt tgtgtcaat aatcctcta 
      actgaatct caagtaatg aatacgcta aataacggt 
      cttcatcga agaaatccg ataagttac gatgagtat 
      gaagattgt gggttgcaa ctcccaaaa cgtcgattt 
      attgctgct ccggaaccg gaaatactc actaatggg 
      gacttgcat ccggttgaa ccgaaccgg gtccggccg 
      gttttcaag ggttacttt gccgggaat ccaccacct 
      ccaatgctc agcagagtc gatgcaagg accctgatg 
      ttggaagaa gagaacaac atgttgcac aaagaaatc 
      gcccaactg aagcgtcaa gtgtccgat ttgacggca 
      accaacgag ttcctcctc gaccagaac gccaatctc 
      cgtgtttcg aacaaacgc aacgaaggc gtctcgatg 
      cccgccgtc accataacc aacaccaac actcctcaa 
      gtgatccga acggtgacg gcgagcgtc gccaccgtc 
      cccgtgtcc ttagccacc gtctcaacg tgcaacccc 
      gtctcagtg tcaattgcg ggcgttcca accgtttcg 
      atggcgccg cctgcacaa atcctcgct cctagtcaa 
      caaatcctc gttacgacg aatccgtcg acgcaagcg 
      cagctagcg atagcccaa cagaatttg gcaaataat 
      ctcgctcaa caggcccaa cctcaattg acgtcgcaa 
      gctcagttg gcgttggcc acgactacg caacagttg 
      actttagcc aacacgcag caggcgcaa cagttggcc 
      aatcaacag caacagctg gccaatcag cagttgacg 
      tcgttggct aacacgtcg caagcgcag ttggctatg 
      gcgagtgtg ccgcagcag ttgctgacg cagaatcaa 
      caaattgag atgcacaga aatgcgatt aatacgtcg 
      caagtgaac gctatgtcg aatacgacg caaccgatg 
      gtgtcgtat ccgattatg acccaaagt atcaaccat 
      gcgttgacg cattaa
    mRNA sequence
    • >TC013984 RA
      gaaaaacgg aaaattcga ttttcaggt gcgcgcggt 
      taatgtatt tattttttt attgaaaat gtccgataa 
      ttccgacga aaaggggca aaacgacaa ggacgacaa 
      catctgtag ggattacat tcgggggat ttgtgaccg 
      gagatattg caagtacaa gcacgaaac ggacatgaa 
      gacgttgaa tttttgcca cgattatca gaacaacat 
      ttgccccag gcccacctg caaattcat ccattgtac 
      tccggagga agaagtcga gtacaaaaa caccggagt 
      catgtcgaa tcatattct ggccgaagc aacacggaa 
      gaatcaatt acccggagc ccaaccgat ttgtaatca 
      attccggaa gggtttgtg cagacgcag cttttgcaa 
      gtatcgaca tttgacccg cgaggagga agatgcaga 
      aattatgga attgataca aaacaataa taagaaaaa 
      tatgatttg tgtcaataa tcctctaac tgaatctca 
      agtaatgaa tacgctaaa taacggtct tcatcgaag 
      aaatccgat aagttacga tgagtatga agattgtgg 
      gttgcaact cccaaaacg tcgatttat tgctgctcc 
      ggaaccgga aatactcac taatgggga cttgcatcc 
      ggttgaacc gaaccgggt ccggccggt tttcaaggg 
      ttactttgc cgggaatcc accacctcc aatgctcag 
      cagagtcga tgcaaggac cctgatgtt ggaagaaga 
      gaacaacat gttgcacaa agaaatcgc ccaactgaa 
      gcgtcaagt gtccgattt gacggcaac caacgagtt 
      cctcctcga ccagaacgc caatctccg tgtttcgaa 
      caaacgcaa cgaaggcgt ctcgatgcc cgccgtcac 
      cataaccaa caccaacac tcctcaagt gatccgaac 
      ggtgacggc gagcgtcgc caccgtccc cgtgtcctt 
      agccaccgt ctcaacgtg caaccccgt ctcagtgtc 
      aattgcggg cgttccaac cgtttcgat ggcgccgcc 
      tgcacaaat cctcgctcc tagtcaaca aatcctcgt 
      tacgacgaa tccgtcgac gcaagcgca gctagcgat 
      agcccaaca gaatttggc aaataatct cgctcaaca 
      ggcccaacc tcaattgac gtcgcaagc tcagttggc 
      gttggccac gactacgca acagttgac tttagccaa 
      cacgcagca ggcgcaaca gttggccaa tcaacagca 
      acagctggc caatcagca gttgacgtc gttggctaa 
      cacgtcgca agcgcagtt ggctatggc gagtgtgcc 
      gcagcagtt gctgacgca gaatcaaca aattgagat 
      gcacagaaa tgcgattaa tacgtcgca agtgaacgc 
      tatgtcgaa tacgacgca accgatggt gtcgtatcc 
      gattatgac ccaaagtat caaccatgc gttgacgca 
      ttaaaaaca tttttcaag agttaagtt cagtgcaag 
      actgaagtt gtaggttaa ggttgtttc aagcttaaa 
      tagtttctg gttttttaa gaagatgtg cttagttct 
      gtgttgttt tgataagtg atttgtgtg cagcttcct 
      tgatgatta aagggggag ctacgttcg cggaaaacg 
      ttggggttg cttggtaac caaggtttc ggaacaggt 
      ggcgccacg ttagggaaa cttccttca ctggtcaag 
      gaagctgtg ggtttgtgc aagtcggga aagccctgt 
      acaaatttt tcgagtctt aggttaggt atttgataa 
      acagttttg tctccgttc taatattgt taatacact 
      taaaataaa cttatttat gtcgaagtt tatctaaat 
      gaccagttt tccaattgt cctgtcagc caggtaaat 
      aaataccag ggtaattg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY