Status
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Gene information
General information
TC006788 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: 14289300..14300592
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
    TC006788
    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_06391

    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: 40.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    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 larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    antenna complete not present - Penetrance (percentage of animals/eggs on slide): more than 80%

    abdomen segment slightlynumber decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen segment shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen segment potentially partiallyfused - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    Fertility
    egg production: number no/almost no eggs -
    mature egg deposition blocked number 1st lateral oviduct: 4 number 2nd lateral oviduct: - Number of animals showing the phenotype: 4
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006788 RA
      MAPYFTGYP FQGQGRVNQ LGGVFINGR PLPNHIRLK 
      IVEMAAAGI RPCVISRQL RVSHGCVSK ILNRYQETG 
      SIRPGVIGG SKPRVATLE VEARIEQLK KEEPQIFSW 
      EIRDRLIKE GICDKNSAP SVSSISRLL RGGRKEDPD 
      RKNHSIEGI LGPNSSCDE SDTESEPGI PLKRKQRRS 
      RTTFTGEQL EALERAFGR TQYPDVYTR EELAQKTKL 
      TEARVQVWF SNRRARLRK QLNSQQLNA FNSMSLPSA 
      FPVQHQYGD PAFNQSTWA QQSYASAAL SSGALPHSA 
      LTTGGASTS VASSTPNTL YNSYNSAAT LDQNNQFGY 
      NMAQVSPNQ HSVSPAAHQ QSAVWSRQN NKVAENLSS 
      WHENYSLFA GSHYGAHSP SEAKSGYPY LGTMDMCAS 
      RVH
    CDS sequence
    • >TC006788 RA
      atggcaccg tatttcact ggataccca ttccaaggt 
      cagggccgt gtaaaccaa ctcggaggt gtgtttatc 
      aacggacgt cctttaccg aatcacatc agactgaaa 
      atcgtcgaa atggcagca gcgggcata agaccctgc 
      gtgatttca agacagtta agggtttca cacggttgt 
      gtttcgaaa attttgaac cgttatcag gaaactgga 
      agcataaga ccgggagtt atcggcggt tcgaagcca 
      agagttgca acgttggaa gttgaggca aggatagaa 
      caactcaaa aaggaggaa ccgcaaatt ttctcgtgg 
      gaaattaga gacagatta atcaaggag ggcatttgc 
      gacaagaat tcggccccg tctgtgagc tccattagc 
      cgtttattg cgcggagga agaaaagaa gatccggat 
      cgaaaaaac cactcgatc gaaggtatt cttggaccg 
      aattcttcc tgtgacgaa agcgacacc gaatcagaa 
      ccgggaatc ccgctaaaa agaaaacag cgtcgttcc 
      cgaacgact ttcaccggc gaacaactc gaagcttta 
      gaacgagct ttcggtcgt acccaatac cccgatgtt 
      tacaccagg gaagaactg gcccaaaaa acgaaacta 
      acggaagca cgagttcaa gtttggttt tcgaatcga 
      agggcacgt ctccgaaaa caactaaat tcgcaacaa 
      ctcaacgct tttaattcc atgtcacta ccgtcggct 
      tttcccgtg cagcaccag tacggcgat cctgccttt 
      aatcaaagc acttgggcg caacagagc tacgcttcg 
      gcagctctg agcagtgga gctcttcct catagtgcc 
      ctaactact ggtggtgca agcacaagt gtggcatcg 
      tcaacaccc aatacttta tacaacagt tacaattcg 
      gctgcgact ttagatcaa aacaaccaa ttcggttac 
      aatatggcc caggtttcg ccgaatcag catagcgtt 
      tcgccagcg gctcatcag cagagtgcc gtttggtcg 
      agacaaaac aataaagtc gctgaaaat ctgagcagc 
      tggcacgag aattacagc cttttcgct ggtagccat 
      tatggggcc cattcaccc agcgaggcc aaatcggga 
      tacccatat ctgggcacc atggacatg tgcgcaagt 
      cgagtgcac taa
    mRNA sequence
    • >TC006788 RA
      ggtcagttt tcttcaaga agttcaact ggtacgacg 
      aaacgcgtt cggcttagt ttttctaaa cggtttagg 
      tcgtgttgg gtggatgtt cagtgattt ctaaacatt 
      ttttttcac gtttttggg aataaatgg cagtttcta 
      cactcaata tggcaccgt atttcactg gatacccat 
      tccaaggtc agggccgtg taaaccaac tcggaggtg 
      tgtttatca acggacgtc ctttaccga atcacatca 
      gactgaaaa tcgtcgaaa tggcagcag cgggcataa 
      gaccctgcg tgatttcaa gacagttaa gggtttcac 
      acggttgtg tttcgaaaa ttttgaacc gttatcagg 
      aaactggaa gcataagac cgggagtta tcggcggtt 
      cgaagccaa gagttgcaa cgttggaag ttgaggcaa 
      ggatagaac aactcaaaa aggaggaac cgcaaattt 
      tctcgtggg aaattagag acagattaa tcaaggagg 
      gcatttgcg acaagaatt cggccccgt ctgtgagct 
      ccattagcc gtttattgc gcggaggaa gaaaagaag 
      atccggatc gaaaaaacc actcgatcg aaggtattc 
      ttggaccga attcttcct gtgacgaaa gcgacaccg 
      aatcagaac cgggaatcc cgctaaaaa gaaaacagc 
      gtcgttccc gaacgactt tcaccggcg aacaactcg 
      aagctttag aacgagctt tcggtcgta cccaatacc 
      ccgatgttt acaccaggg aagaactgg cccaaaaaa 
      cgaaactaa cggaagcac gagttcaag tttggtttt 
      cgaatcgaa gggcacgtc tccgaaaac aactaaatt 
      cgcaacaac tcaacgctt ttaattcca tgtcactac 
      cgtcggctt ttcccgtgc agcaccagt acggcgatc 
      ctgccttta atcaaagca cttgggcgc aacagagct 
      acgcttcgg cagctctga gcagtggag ctcttcctc 
      atagtgccc taactactg gtggtgcaa gcacaagtg 
      tggcatcgt caacaccca atactttat acaacagtt 
      acaattcgg ctgcgactt tagatcaaa acaaccaat 
      tcggttaca atatggccc aggtttcgc cgaatcagc 
      atagcgttt cgccagcgg ctcatcagc agagtgccg 
      tttggtcga gacaaaaca ataaagtcg ctgaaaatc 
      tgagcagct ggcacgaga attacagcc ttttcgctg 
      gtagccatt atggggccc attcaccca gcgaggcca 
      aatcgggat acccatatc tgggcacca tggacatgt 
      gcgcaagtc gagtgcact aaaattttt cccatttcg 
      tcagcttac accacactg cgctggact tactactaa 
      cataagggc tttattatt ttagttgtt ttttttgta 
      cttattttc agtgccacc attgtacta ctattgtaa 
      tcactgtac atacaagtg tattttaag cgtagtttt 
      agcgaatga gtagctgtt aattataca ataactact 
      gtttctgtg aattttatt tagctgtat tcacttaga 
      gattaataa atttcttgc aataca
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY