Status
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Gene information
General information
TC013321 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: 11087603..11100057
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
    TC013321
    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
    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
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    Email
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    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_05418

    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: 60.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 4 (3 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 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: 40.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 60.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC013321 RA
      MDVTNGTNC GGKYTRPGY CPEIFDEML CWPETLGGT 
      TVNQSCPKK MGYDSRRFA YKDCLENGS WFKHPKSGK 
      IWTNYTTCV DHEDLAFRT HINHLFVIG YSISLAALV 
      ISLAIFFTF RTLKCTRIR IHIQLFISF ALNNLMWII 
      WYKEVVPNP FVTIRNELW CQALHLVVH YLMLANYMW 
      MFCEGLHLH LALVVVFVR DAETMKWFF ALGWGAPFI 
      IVLIYSVVR IFILKDNYM CWMADSYYS SWILTAPVC 
      ISLLVSLIF LINVLRVIL TIMHPNSAN PAPMGLRRA 
      ARAALILIP LFGLQHILI PFRPDMYDP YEHLYQYVT 
      VVVVTLQGL CVSCLFCFA NQDVHQAIR GFMHRKVYR 
      TTRWSNYHY TGAADSAGV YVVNGSSHC NNVGLLSLK 
      RKSTTTVKL
    CDS sequence
    • >TC013321 RA
      atggacgtt acaaatggg actaattgt ggtggaaaa 
      tacaccaga cctggttat tgtccggag attttcgac 
      gagatgctg tgctggccg gagaccctc gggggcacc 
      accgtgaac cagtcctgt ccgaaaaaa atgggatac 
      gactctcgc cgtttcgcc tacaaagac tgcctcgaa 
      aacggctcc tggttcaag cacccgaaa tccggcaaa 
      atctggacc aactacacc acctgtgtc gaccacgag 
      gacttagct ttccgaact cacataaat cacctgttc 
      gtcatcggc tattcgatt tcattggcg gcgctcgtc 
      atctcgctc gccattttc ttcacgttc cggacgctg 
      aaatgcacc cgcatccgc atccacatc cagctgttt 
      atctcgttc gccctcaac aacctcatg tggatcatc 
      tggtacaaa gaagtcgtc cctaatcct ttcgtcacc 
      atccgcaat gagctctgg tgtcaggct cttcatctc 
      gttgtacat tacttaatg ttggcgaat tacatgtgg 
      atgttctgc gagggcttg catctgcat cttgctcta 
      gttgttgtc tttgtgaga gatgcggaa acgatgaag 
      tggtttttc gcgctggga tggggcgcc cctttcatc 
      atcgtcctc atttacagc gttgtgagg atattcatc 
      ttaaaggac aactacatg tgctggatg gccgacagc 
      tactacagc tcctggatc ctcacagcc cccgtctgc 
      atctccctg cttgtgtct ctcatattt ctgatcaac 
      gtgctgcga gttattttg accattatg catccgaat 
      tcggccaat ccggctccc atgggactg agacgggct 
      gccagagct gcacttatt ctcattccg ctcttcggg 
      ctccagcac attctgata ccgtttaga ccggatatg 
      tacgacccc tacgagcat ctgtatcag tacgtcact 
      gtcgtcgtt gtcacattg caaggttta tgcgtatcg 
      tgtctgttc tgcttcgcc aaccaggac gtccatcag 
      gccattcgg ggttttatg caccgtaag gtttaccgg 
      acgactcgc tggagcaac taccattac accggagcc 
      gcggacagc gccggggtt tacgtggtt aatggcagc 
      agccactgc aacaatgtg gggctatta tcactgaaa 
      aggaaatcg acaaccact gtcaaactg taa
    mRNA sequence
    • >TC013321 RA
      gacttttcg gtcaacaat ggacgttac aaatgggac 
      taattgtgg tggaaaata caccagacc tggttattg 
      tccggagat tttcgacga gatgctgtg ctggccgga 
      gaccctcgg gggcaccac cgtgaacca gtcctgtcc 
      gaaaaaaat gggatacga ctctcgccg tttcgccta 
      caaagactg cctcgaaaa cggctcctg gttcaagca 
      cccgaaatc cggcaaaat ctggaccaa ctacaccac 
      ctgtgtcga ccacgagga cttagcttt ccgaactca 
      cataaatca cctgttcgt catcggcta ttcgatttc 
      attggcggc gctcgtcat ctcgctcgc cattttctt 
      cacgttccg gacgctgaa atgcacccg catccgcat 
      ccacatcca gctgtttat ctcgttcgc cctcaacaa 
      cctcatgtg gatcatctg gtacaaaga agtcgtccc 
      taatccttt cgtcaccat ccgcaatga gctctggtg 
      tcaggctct tcatctcgt tgtacatta cttaatgtt 
      ggcgaatta catgtggat gttctgcga gggcttgca 
      tctgcatct tgctctagt tgttgtctt tgtgagaga 
      tgcggaaac gatgaagtg gtttttcgc gctgggatg 
      gggcgcccc tttcatcat cgtcctcat ttacagcgt 
      tgtgaggat attcatctt aaaggacaa ctacatgtg 
      ctggatggc cgacagcta ctacagctc ctggatcct 
      cacagcccc cgtctgcat ctccctgct tgtgtctct 
      catatttct gatcaacgt gctgcgagt tattttgac 
      cattatgca tccgaattc ggccaatcc ggctcccat 
      gggactgag acgggctgc cagagctgc acttattct 
      cattccgct cttcgggct ccagcacat tctgatacc 
      gtttagacc ggatatgta cgaccccta cgagcatct 
      gtatcagta cgtcactgt cgtcgttgt cacattgca 
      aggtttatg cgtatcgtg tctgttctg cttcgccaa 
      ccaggacgt ccatcaggc cattcgggg ttttatgca 
      ccgtaaggt ttaccggac gactcgctg gagcaacta 
      ccattacac cggagccgc ggacagcgc cggggttta 
      cgtggttaa tggcagcag ccactgcaa caatgtggg 
      gctattatc actgaaaag gaaatcgac aaccactgt 
      caaactgta aaaatgggg gagatttgg ggccgattc 
      ctcggattg agagggcgg ttttttacg tttatttca 
      atgtgctgt tgcattgct gtggtttat gggccgttc 
      ggcgtaaaa cttgtttgc ctgcgccca cggatgcgg 
      acgttgctg aaaatttta gtacttgat ggaggaaaa 
      agcggctaa cggccgcac tcagaatat cacgttttc 
      tactgttca gtattactt gtacataag ttagtttgt 
      gtaatgtta gccacctaa aataattat ccatgtacc 
      tagtaggta ataactttg aaagggagc acatgatac 
      gcttacacc ctgagtcat tgtcattcg tgtcgttcg 
      acctaaatg taatatgaa taaaataaa accctgaca 
      agcaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY