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Gene information
General information
TC008318 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_007419.2: 8433172..8434729
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
    TC008318
    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
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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_07228

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    Fertility
    mature egg deposition blocked number 1st lateral oviduct: >5 number 2nd lateral oviduct: - Number of animals showing the phenotype: 4
    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
    • >TC008318 RA
      MPIYETLSD RLTVVLDIG AAYTKFGFS GEYAPRCII 
      RSEVRCKKT NQVRRIFDF KDEQDLYDL LVDFIHTLY 
      FKYALFSPK DKPIVVVES LLSPTLFRE TLAKVLFVH 
      YEISMMLIV PSHLVSLST LGAETALVL DVGYIEAVA 
      IPVCFGLPV IHAWQALPL GAQAIHNNL RTLLSSENT 
      GINQLPETV IEDIKVRCC FVTKQKRAE QFNLAKPDI 
      TFAPEVKYP IGGSDIITI SGKVREKVY EILYDEDND 
      HLSLSTMIL DAILKVDMH LRNQLAENI LLIGGSVMA 
      PGFKARLKD ELHKQLKYE RYKKLRIKT FKFHSPPCK 
      ENYAAWLGG GIYGATEVL GMKALTREK YFLENRLPD 
      WPNMRDNRT L
    CDS sequence
    • >TC008318 RA
      atgccaatt tacgaaacg ttgagcgat agattaact 
      gtcgtgctc gatatcggg gctgcctac accaagttt 
      ggtttcagt ggggagtac gccccacga tgcataatt 
      cgttcggaa gtccggtgc aaaaaaacg aatcaagtc 
      cggcgaatc tttgatttt aaagatgaa caagatttg 
      tatgattta cttgtggat ttcatccac actttgtat 
      ttcaaatac gcgttgttt agccccaaa gacaaacca 
      atcgtggtt gttgaatct cttctatct ccgacatta 
      ttcagagaa accttagct aaagttttg tttgtccat 
      tatgaaatt tcaatgatg ttgattgtg ccttcacat 
      ttagtaagt ttatccacc ctgggggct gaaacagct 
      ctagtgcta gatgttggc tacattgaa gccgttgct 
      attcctgtt tgttttggt ctgccggta attcacgcc 
      tggcaagcc ctacctttg ggggcacaa gcaattcat 
      aataacttg cggacttta ctgagctcg gaaaatacc 
      ggaatcaat caattgccc gaaacagtc attgaagat 
      atcaaagtg cgctgttgt ttcgtgacc aaacaaaaa 
      cgcgccgaa cagttcaat ttggcaaaa cctgacatc 
      acttttgcc cccgaggtc aagtacccc atcgggggc 
      tccgacatt ataacaatc tcgggaaaa gtgcgcgaa 
      aaggtttac gaaattttg tacgatgaa gataacgac 
      catttgagc ctctctacc atgatcctt gatgctata 
      cttaaagtt gatatgcat ttgaggaac caactcgct 
      gaaaatatt cttttaatt ggaggtagt gtcatggcc 
      cccggattt aaagcaaga ctgaaagac gagttacac 
      aaacaattg aaatacgag aggtacaag aaattgaga 
      attaagacg ttcaagttt catagtcca ccctgtaag 
      gaaaattat gccgcgtgg ttgggtggg ggcatttat 
      ggggcaacg gaagtcttg ggcatgaag gccttaaca 
      cgggagaag tatttcctg gagaatcgc ttacccgat 
      tggcccaat atgagggat aataggact ctttaa
    mRNA sequence
    • >TC008318 RA
      cccctgatt taaaaatgt gtaaacgca agccattgc 
      ataagagca catgcaggg gttattctt ctgtctgtc 
      gatagacgt atgtttatt ttttttaat gaaatgaca 
      gtgattttt tgccggtga tgttgtaat gttggcata 
      ttggttatt gacagataa gtaacctgt gttgttgtg 
      gtgttgttt tttttgcct ataaaagta ttaaaatag 
      ggttaaaat gccaattta cgaaacgtt gagcgatag 
      attaactgt cgtgctcga tatcggggc tgcctacac 
      caagtttgg tttcagtgg ggagtacgc cccacgatg 
      cataattcg ttcggaagt ccggtgcaa aaaaacgaa 
      tcaagtccg gcgaatctt tgattttaa agatgaaca 
      agatttgta tgatttact tgtggattt catccacac 
      tttgtattt caaatacgc gttgtttag ccccaaaga 
      caaaccaat cgtggttgt tgaatctct tctatctcc 
      gacattatt cagagaaac cttagctaa agttttgtt 
      tgtccatta tgaaatttc aatgatgtt gattgtgcc 
      ttcacattt agtaagttt atccaccct gggggctga 
      aacagctct agtgctaga tgttggcta cattgaagc 
      cgttgctat tcctgtttg ttttggtct gccggtaat 
      tcacgcctg gcaagccct acctttggg ggcacaagc 
      aattcataa taacttgcg gactttact gagctcgga 
      aaataccgg aatcaatca attgcccga aacagtcat 
      tgaagatat caaagtgcg ctgttgttt cgtgaccaa 
      acaaaaacg cgccgaaca gttcaattt ggcaaaacc 
      tgacatcac ttttgcccc cgaggtcaa gtaccccat 
      cgggggctc cgacattat aacaatctc gggaaaagt 
      gcgcgaaaa ggtttacga aattttgta cgatgaaga 
      taacgacca tttgagcct ctctaccat gatccttga 
      tgctatact taaagttga tatgcattt gaggaacca 
      actcgctga aaatattct tttaattgg aggtagtgt 
      catggcccc cggatttaa agcaagact gaaagacga 
      gttacacaa acaattgaa atacgagag gtacaagaa 
      attgagaat taagacgtt caagtttca tagtccacc 
      ctgtaagga aaattatgc cgcgtggtt gggtggggg 
      catttatgg ggcaacgga agtcttggg catgaaggc 
      cttaacacg ggagaagta tttcctgga gaatcgctt 
      acccgattg gcccaatat gagggataa taggactct 
      ttaattttt tgtaataaa ttgtttgta ttttg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY