Status
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Gene information
General information
TC006627 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: 12094581..12099177
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
    TC006627
    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_07553

    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: 10.0% (includes death as pupa, adult)

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


    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): 30% - 50%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    head appendages shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    head appendages random not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    head shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    head not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    thorax shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    thorax not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen not present - 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: % (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
    • >TC006627 RA
      MSDRSDRDY IGFATLPDQ VHRKSVKRG FDFTLMVVG 
      ESGLGKSTL INSLFLDDL YKNRKIPDV SERIQKTTS 
      IEKKTMEIE ERGVKLRLT VIDTPGFGD AVNCEDSWK 
      VCTNYIDDQ FRQYFTDES GLNRRNIQD NRVHCCLYF 
      VPPWGHSLR QMDLELMKR LHQKVNIVV VIAKADCLT 
      SSEIAKLKQ NIINDIREH EIQMYEFPE CDSDEDEEF 
      KQQDRELKA SVPFAVVGS NTILEVAGR KVRGRQYPW 
      GVVDVENPK HSDFIKLRT MLISTHMQD LKDVTEDVH 
      YENFRAQCI SQISQHARE RGKLKRDSA PYDSDCSET 
      DRLLLQKDQ EIRRMQEML NQMQEKLKG NA
    CDS sequence
    • >TC006627 RA
      atgtcagat aggagcgac cgcgactac atcggcttt 
      gccaccctg ccggaccaa gtccaccgc aagtcagtg 
      aagcgcggt ttcgacttc acccttatg gtggtgggc 
      gagtctggc ttgggcaaa tccactctg attaacagt 
      ctgttcctg gatgacctc tacaaaaat cgcaaaatc 
      cccgatgtc agcgaacgc atccagaaa acgacttcc 
      atcgagaaa aaaacgatg gaaatcgag gaacgcgga 
      gtgaaactc cggctgacc gtaatcgac acacctggc 
      ttcggagac gctgttaat tgtgaagac agctggaaa 
      gtgtgcaca aactacatt gacgatcaa ttcagacaa 
      tacttcacc gacgaaagc gggctaaat aggcggaat 
      atccaggat aatcgggtc cattgctgt ctctacttt 
      gtaccaccg tggggacac agtctgagg cagatggac 
      ctggagctg atgaagcgg ctgcaccag aaagtcaat 
      atcgtggtg gtcatcgcc aaggccgac tgcctcacc 
      agctcagag atcgccaag ctcaagcag aatattatc 
      aacgatatt agagagcac gaaattcag atgtacgaa 
      ttccccgaa tgcgacagc gacgaagac gaagaattc 
      aagcaacaa gaccgggaa ctgaaagcg agtgttccc 
      tttgctgtt gttggcagt aacacgatt ttagaagtg 
      gctggtagg aaagtcagg gggcgccaa tatccttgg 
      ggagtggtc gatgtcgag aacccgaaa cacagcgat 
      tttattaag ttaagaacg atgctaatc tccacgcac 
      atgcaagat ctcaaagat gtcaccgaa gatgttcac 
      tatgagaat ttccgagca caatgtatc tcgcaaatt 
      tcgcaacac gcccgggaa agggggaag ttgaagagg 
      gactcagcc ccctacgac tcggattgc tcagaaacc 
      gaccggttg ctgctccaa aaggaccaa gaaatccgg 
      cgaatgcaa gaaatgctg aaccagatg caagagaaa 
      ctcaaaggc aacgcttaa
    mRNA sequence
    • >TC006627 RA
      ttgtacgat taacaattt aaatgcatg tcgccaact 
      ttcccaaaa ttgtcataa ataattgat tacggacgg 
      gacacaaat gcacctatt tttaatagt aaaaaaggt 
      tttttgtga ctttcaatt aagggcaca tttatagca 
      acagctgtg ttattgtag tggcaatac tggcactta 
      gcggtttct tcagaacaa tctaatttt aattcgtca 
      tgccatact ctcgactca aaaaaaatt aaaacggtg 
      tattagtta ttgacataa aacatattt atttaaatt 
      aacgataaa aagttaaat cgcaacttt cactaaaaa 
      ctgtcaaat gggggcaaa catgtaccg tatcaatta 
      gcacaatta ccaaatttt cacggtcag ttcatccat 
      ttcccaaaa aaaaataaa aagcctcat tattatgat 
      tatttcctg cactcagga acggaaaca aaatgacaa 
      taacgtgtt ttatcattg ttggaaaat tcgattttg 
      attacaatc acagcacaa agtcgtgat aatgattgt 
      aaacatcaa gtggaatat tttttgttc actcaatta 
      ttaaatatt ttcaaaatt taaaatacg tttgcgcat 
      ttcgcattg tcccccctt cctattcca tttgcccct 
      ccacctggc atccagtgg agggtgtga aattgaaaa 
      agagcgcga gggctccat tattgatcg tcggcagtt 
      aggtgctac acccaccgc aggggaaat ctttgtttt 
      gtccatcat caggcactt tcgaaacgt ttgatgctg 
      ctaacaacg gtgacatta tgaaaacag tagcggtct 
      gataattgt gttgtgttg tgtcttgct tttatcagc 
      caacaatgt cagatagga gcgaccgcg actacatcg 
      gctttgcca ccctgccgg accaagtcc accgcaagt 
      cagtgaagc gcggtttcg acttcaccc ttatggtgg 
      tgggcgagt ctggcttgg gcaaatcca ctctgatta 
      acagtctgt tcctggatg acctctaca aaaatcgca 
      aaatccccg atgtcagcg aacgcatcc agaaaacga 
      cttccatcg agaaaaaaa cgatggaaa tcgaggaac 
      gcggagtga aactccggc tgaccgtaa tcgacacac 
      ctggcttcg gagacgctg ttaattgtg aagacagct 
      ggaaagtgt gcacaaact acattgacg atcaattca 
      gacaatact tcaccgacg aaagcgggc taaataggc 
      ggaatatcc aggataatc gggtccatt gctgtctct 
      actttgtac caccgtggg gacacagtc tgaggcaga 
      tggacctgg agctgatga agcggctgc accagaaag 
      tcaatatcg tggtggtca tcgccaagg ccgactgcc 
      tcaccagct cagagatcg ccaagctca agcagaata 
      ttatcaacg atattagag agcacgaaa ttcagatgt 
      acgaattcc ccgaatgcg acagcgacg aagacgaag 
      aattcaagc aacaagacc gggaactga aagcgagtg 
      ttccctttg ctgttgttg gcagtaaca cgattttag 
      aagtggctg gtaggaaag tcagggggc gccaatatc 
      cttggggag tggtcgatg tcgagaacc cgaaacaca 
      gcgatttta ttaagttaa gaacgatgc taatctcca 
      cgcacatgc aagatctca aagatgtca ccgaagatg 
      ttcactatg agaatttcc gagcacaat gtatctcgc 
      aaatttcgc aacacgccc gggaaaggg ggaagttga 
      agagggact cagccccct acgactcgg attgctcag 
      aaaccgacc ggttgctgc tccaaaagg accaagaaa 
      tccggcgaa tgcaagaaa tgctgaacc agatgcaag 
      agaaactca aaggcaacg cttaagcag cagtattaa 
      cttcaatca attagacgc gctatagtt gatgtttta 
      cctaccaaa gacttaatt taatttcac gtttttcca 
      tatttatat tggatttat gttatttta tatgttatt 
      tgaataaat atttattag aacg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY