Status
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Gene information
General information
TC002884 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_007418.3: 7270952..7272423
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
    TC002884
    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_09764

    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: 30.0% (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: 1 (9 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: % (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
    • >TC002884 RA
      MLKIILPKL IKKPRLSVH FYSTEATFE LKPFRLHRL 
      EAGPATQVT LTKPDALTI YDQMQTIRK METAISKLY 
      TAKAIRGFC HLYAGQEAV AVGVQYNVR PNDIIVTSY 
      RNHAWTLLN GNLDPAPVV CELMGTTGG CSRGKGGSM 
      HMYGKNFIG GSGIVGAHV PLGAGVAFT FKYKNEDGV 
      AITVYGDGA ANNGQVFEA FNMAKMWKL PCLFLCENN 
      LFGMGTSVD RHAANKEFY TRGDYIPGV WTDGMDVLM 
      VREAVKFAF NHCISGKGP IIIEAQTYR YFGHSMSDP 
      GTSYRTHEE VKEMRSKRD PITNFKQKI LDAKLVTED 
      ELKEIENKR KKTVDDAVA KCKKDKEVG LEELTINIY 
      SNDVYKEIR GVSPFSKLQ HKVVKI
    CDS sequence
    • >TC002884 RA
      atgttaaaa ataatttta ccgaaactg ataaagaaa 
      ccaagactt tccgttcac ttttactca accgaggcc 
      acttttgaa ttaaagccc ttccgtctc caccgcctt 
      gaggcgggc cctgccacc caagtcacc ctaacaaaa 
      cccgacgct ttgaccatc tacgaccaa atgcaaacc 
      atccgcaaa atggaaacg gccatcagc aaattatac 
      acggctaaa gccatccgg ggcttctgc cacctgtac 
      gccggccag gaagccgtg gctgtgggg gtccaatac 
      aacgtgcgc cccaacgac atcatcgtc accagttac 
      agaaaccac gcatggact ctcctcaat ggcaattta 
      gaccccgct cccgtcgtc tgcgagctt atggggacc 
      acgggcggg tgctcaaga ggcaaaggg ggctccatg 
      cacatgtac gggaagaac ttcatcggg ggtagtggc 
      atagtgggg gcccatgtg cccctgggc gcgggcgta 
      gccttcacc ttcaaatac aagaacgag gatggggtt 
      gcgataacg gtgtatggg gacggggct gccaacaac 
      gggcaagtc ttcgaagcc ttcaatatg gcgaaaatg 
      tggaagctg ccttgcttg ttcctctgc gagaataac 
      ttgttcggc atggggaca agtgttgac agacatgca 
      gccaataaa gagttttac accagaggg gattacatt 
      ccgggggtt tggactgac ggcatggac gttttaatg 
      gtgagggaa gccgtaaag tttgcattt aatcattgc 
      atctccggc aaagggccc attattatc gaagcacaa 
      acgtaccga tatttcgga cactctatg tccgacccc 
      ggcaccagc taccgcact catgaagaa gtcaaagag 
      atgcggagt aaaagagac cccataacg aatttcaag 
      caaaagatt ctagacgcg aaacttgtg actgaagac 
      gagcttaag gaaatcgaa aacaagcgc aagaaaacc 
      gtagacgat gctgtagcc aagtgcaaa aaagacaaa 
      gaggtgggg cttgaagaa ctgacgatt aacatttat 
      tccaacgat gtttataaa gaaattcga ggggttagt 
      ccgttttct aagttacag cataaagta gtgaaaatt 
      taa
    mRNA sequence
    • >TC002884 RA
      aaacaacct cgtgttgtt tgctttagg aaaagactt 
      tatacttta tactttgca attcaaaaa agtaatagg 
      taatgaaat ttatacttt caatcggag atttaatca 
      ttaataact atttaaatt tttttttat cttatttca 
      aaaaataat tcaacaaaa tgcgacgtt ggggttttt 
      atattttcg aaacaggta atacaactt tttttatac 
      ggccctgtg tttattttt tattgttga cgactttga 
      caatttcaa aaagtgtca aacagcaca tacaatgtt 
      aaaaataat tttaccgaa actgataaa gaaaccaag 
      actttccgt tcactttta ctcaaccga ggccacttt 
      tgaattaaa gcccttccg tctccaccg ccttgaggc 
      gggccctgc cacccaagt caccctaac aaaacccga 
      cgctttgac catctacga ccaaatgca aaccatccg 
      caaaatgga aacggccat cagcaaatt atacacggc 
      taaagccat ccggggctt ctgccacct gtacgccgg 
      ccaggaagc cgtggctgt gggggtcca atacaacgt 
      gcgccccaa cgacatcat cgtcaccag ttacagaaa 
      ccacgcatg gactctcct caatggcaa tttagaccc 
      cgctcccgt cgtctgcga gcttatggg gaccacggg 
      cgggtgctc aagaggcaa agggggctc catgcacat 
      gtacgggaa gaacttcat cgggggtag tggcatagt 
      gggggccca tgtgcccct gggcgcggg cgtagcctt 
      caccttcaa atacaagaa cgaggatgg ggttgcgat 
      aacggtgta tggggacgg ggctgccaa caacgggca 
      agtcttcga agccttcaa tatggcgaa aatgtggaa 
      gctgccttg cttgttcct ctgcgagaa taacttgtt 
      cggcatggg gacaagtgt tgacagaca tgcagccaa 
      taaagagtt ttacaccag aggggatta cattccggg 
      ggtttggac tgacggcat ggacgtttt aatggtgag 
      ggaagccgt aaagtttgc atttaatca ttgcatctc 
      cggcaaagg gcccattat tatcgaagc acaaacgta 
      ccgatattt cggacactc tatgtccga ccccggcac 
      cagctaccg cactcatga agaagtcaa agagatgcg 
      gagtaaaag agaccccat aacgaattt caagcaaaa 
      gattctaga cgcgaaact tgtgactga agacgagct 
      taaggaaat cgaaaacaa gcgcaagaa aaccgtaga 
      cgatgctgt agccaagtg caaaaaaga caaagaggt 
      ggggcttga agaactgac gattaacat ttattccaa 
      cgatgttta taaagaaat tcgaggggt tagtccgtt 
      ttctaagtt acagcataa agtagtgaa aatttaacg 
      tgaaagcaa aataataaa ttttcaaaa ctgca
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY