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Gene information
General information
TC006993 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.

NW_015451036.1: 222578..224412
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
    TC006993
    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_01105

    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: 50.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 5 (9 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    with muscle fluorescence/pattern, but not hatched (pot. late embryonic lethality) - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 50.0% (includes death as larva, prepupa, pupa, adult)

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection


    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    pupal molt not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection


    Fertility
    egg production: number <50% of expected -
    mature egg deposition blocked number 1st lateral oviduct: 3 number 2nd lateral oviduct: - Number of animals showing the phenotype: 3
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006993 RA
      MAGFTESAF IKKLNDLNN SSQSIQTLS FWLIHHRKH 
      YSTVVKLWG RELIKAKDS KKLTFMYLA NDVIQNSRK 
      KGPEYGQEF GAHLKKAFE HMSDAEEKT ISSLERLLT 
      IWSERGIYN ETQISDFRS ALKKEGPPL KKVKTDGKA 
      PKEKKKSEH EVTVEVDGM VETHVHLSP HTPAGDPPE 
      PEELIKAIQ DLENNIASA DEGVRQRIA QLPPSVTEI 
      SSIASLQDK EQAEKLSQQ VNEAVTLLN EYNSRLAVE 
      MEHRKKVSS MIRDFLQVQ QELLAQAEQ NLEEYQDKL 
      IKVYSVRNE LKSHIQNLP DLTQLPNVT DGLAPLPSA 
      EHLFMP
    CDS sequence
    • >TC006993 RA
      atggcaggc tttaccgaa tcggctttt atcaaaaaa 
      ctaaacgat ttaaacaat tcctcgcaa agtatacaa 
      accttatcg ttttggtta atccatcac agaaaacat 
      tacagtaca gtagtgaaa ttatggggc agagaactg 
      atcaaagcc aaggacagc aaaaaacta acatttatg 
      tacttggca aatgatgta attcaaaac agccgcaaa 
      aagggcccc gaatatggc caggaattt ggggctcac 
      ttgaaaaag gccttcgag cacatgtcg gacgccgag 
      gaaaaaacc ataagtagt ttagaacgt ttattaaca 
      atttggagc gagaggggg atttacaat gagacacaa 
      attagcgat tttaggagt gcgttaaaa aaagaaggg 
      ccgcctttg aaaaaagtc aaaaccgat ggaaaagca 
      cccaaagag aagaaaaag tctgaacat gaggttaca 
      gttgaagtg gacggaatg gtggaaacg catgtgcac 
      ttaagtcca catacgcca gctggggat ccccctgaa 
      cctgaagaa ctaatcaag gcaatccaa gatttggag 
      aataatatt gcgtccgct gatgaaggg gtgcggcaa 
      cgcattgct caattgccg ccttcggtc accgaaatt 
      tcctcaata gctagcttg caagataaa gagcaagcc 
      gaaaaactg agtcaacaa gtgaacgaa gctgtgacg 
      ttgttaaat gagtacaac agtcgtctc gccgttgaa 
      atggaacat cgcaaaaaa gtttcgtca atgattcga 
      gactttctt caggtgcag caagaactg ttggctcaa 
      gccgagcaa aatctagag gaatatcaa gataaacta 
      atcaaagtc tatagtgtt cgaaacgaa ttaaaatct 
      cacattcag aatttaccc gatctgacg caactcccg 
      aatgtgacc gacggttta gctccatta ccctcagct 
      gaacattta tttatgcct taa
    mRNA sequence
    • >TC006993 RA
      caccacgaa atgtcaact tgttgtgat tagcaatat 
      ttgtggtta tatttacac ttttttcct aagttctac 
      aaaaaatac aaaccgtgt taaatggca ggctttacc 
      gaatcggct tttatcaaa aaactaaac gatttaaac 
      aattcctcg caaagtata caaacctta tcgttttgg 
      ttaatccat cacagaaaa cattacagt acagtagtg 
      aaattatgg ggcagagaa ctgatcaaa gccaaggac 
      agcaaaaaa ctaacattt atgtacttg gcaaatgat 
      gtaattcaa aacagccgc aaaaagggc cccgaatat 
      ggccaggaa tttggggct cacttgaaa aaggccttc 
      gagcacatg tcggacgcc gaggaaaaa accataagt 
      agtttagaa cgtttatta acaatttgg agcgagagg 
      gggatttac aatgagaca caaattagc gattttagg 
      agtgcgtta aaaaaagaa gggccgcct ttgaaaaaa 
      gtcaaaacc gatggaaaa gcacccaaa gagaagaaa 
      aagtctgaa catgaggtt acagttgaa gtggacgga 
      atggtggaa acgcatgtg cacttaagt ccacatacg 
      ccagctggg gatccccct gaacctgaa gaactaatc 
      aaggcaatc caagatttg gagaataat attgcgtcc 
      gctgatgaa ggggtgcgg caacgcatt gctcaattg 
      ccgccttcg gtcaccgaa atttcctca atagctagc 
      ttgcaagat aaagagcaa gccgaaaaa ctgagtcaa 
      caagtgaac gaagctgtg acgttgtta aatgagtac 
      aacagtcgt ctcgccgtt gaaatggaa catcgcaaa 
      aaagtttcg tcaatgatt cgagacttt cttcaggtg 
      cagcaagaa ctgttggct caagccgag caaaatcta 
      gaggaatat caagataaa ctaatcaaa gtctatagt 
      gttcgaaac gaattaaaa tctcacatt cagaattta 
      cccgatctg acgcaactc ccgaatgtg accgacggt 
      ttagctcca ttaccctca gctgaacat ttatttatg 
      ccttaaatt gtgattgat ttttcacac aacagtgtt 
      taagtgtcg actg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY