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Gene information
General information
TC015318 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_007421.3: 559370..560619
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
    TC015318
    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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    Publish name
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_02454

    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: 60.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC015318 RA
      MRLLRPFRA LKAFRRQLS TIEPVKLAY ASYESTNSP 
      SDHDPAPLI VNHGLFGSK SNWNSLCKV YHNKTNRKV 
      IAVDARNHG DSPHTQQHT YEHLALDLR ELLTQLKFE 
      KAAFLGHSM GGRAVMYLA LKYPELVDK LIVADISPV 
      TTSPNLKTM PGLFNVMQN LNMPKNVSM SVARSQTDL 
      QLARFIGDK GLRNFLLTN LVQKLDGSY MWRINIPTL 
      MASFEEIAT FPPINKYKF EGPVLFVGG GASDYIQKS 
      DHEQILKLF PKAQFQYIE GAGHWLHSE KPSEFLQHT 
      VDFLNK
    CDS sequence
    • >TC015318 RA
      atgcggctt ttgcggcct ttccgcgcc ttgaaagcc 
      ttccggcgc cagttatcg accatcgag ccggtgaaa 
      ctggcgtac gcctcttac gagagcacg aattcgccc 
      agtgaccac gacccggcc cccttgata gtcaaccat 
      ggcctgttc ggctccaag tcgaattgg aacagtttg 
      tgcaaagtg taccacaat aagaccaac cgcaaggtc 
      atcgcagtc gatgcgcgc aaccacggc gacagcccc 
      catacgcaa cagcacacc tacgagcac ctagcgctc 
      gatttgcgc gagcttttg acgcagctc aagttcgaa 
      aaggcggcc tttttgggg cactcgatg ggcggccgt 
      gctgtgatg tatttggct ttgaaatac cctgaactt 
      gtagataaa ttaatcgtg gcggacatt tccccagtc 
      accacgagc cccaatttg aagacaatg ccgggcctt 
      tttaacgtt atgcaaaat ttaaacatg cccaaaaat 
      gtgtcaatg tcagtggcg aggtcgcag actgattta 
      caattggct aggtttatt ggtgataag gggttgagg 
      aattttctg ttgacgaat ttggtgcag aaattggac 
      ggcagttac atgtggaga ataaatata ccgacttta 
      atggccagt tttgaagaa attgccact tttcccccc 
      attaataaa tacaaattt gaggggcct gtcctattt 
      gtagggggc ggagcgtct gattatata cagaaaagt 
      gaccacgaa cagatactg aagttattc cccaaggcc 
      cagtttcag tacatagaa ggagcaggt cattggtta 
      cacagtgaa aaaccgtcg gagttcctc caacacaca 
      gtcgacttt ttaaataaa taa
    mRNA sequence
    • >TC015318 RA
      ctgagccct tatccaaga ttatgtacg aaaatccgc 
      cctaataat taacaaaac cctaataaa cccagcaat 
      ttggtgatt aaattttgg gttggcggc gctgtcgcc 
      aaattcaaa aatgtcaaa attcgccta acctaaaac 
      ctgcccgaa aatgcggct tttgcggcc tttccgcgc 
      cttgaaagc cttccggcg ccagttatc gaccatcga 
      gccggtgaa actggcgta cgcctctta cgagagcac 
      gaattcgcc cagtgacca cgacccggc ccccttgat 
      agtcaacca tggcctgtt cggctccaa gtcgaattg 
      gaacagttt gtgcaaagt gtaccacaa taagaccaa 
      ccgcaaggt catcgcagt cgatgcgcg caaccacgg 
      cgacagccc ccatacgca acagcacac ctacgagca 
      cctagcgct cgatttgcg cgagctttt gacgcagct 
      caagttcga aaaggcggc ctttttggg gcactcgat 
      gggcggccg tgctgtgat gtatttggc tttgaaata 
      ccctgaact tgtagataa attaatcgt ggcggacat 
      ttccccagt caccacgag ccccaattt gaagacaat 
      gccgggcct ttttaacgt tatgcaaaa tttaaacat 
      gcccaaaaa tgtgtcaat gtcagtggc gaggtcgca 
      gactgattt acaattggc taggtttat tggtgataa 
      ggggttgag gaattttct gttgacgaa tttggtgca 
      gaaattgga cggcagtta catgtggag aataaatat 
      accgacttt aatggccag ttttgaaga aattgccac 
      ttttccccc cattaataa atacaaatt tgaggggcc 
      tgtcctatt tgtaggggg cggagcgtc tgattatat 
      acagaaaag tgaccacga acagatact gaagttatt 
      ccccaaggc ccagtttca gtacataga aggagcagg 
      tcattggtt acacagtga aaaaccgtc ggagttcct 
      ccaacacac agtcgactt tttaaataa ataaataaa 
      taaatggac cgaacttaa tcagtcaat ggtatattt 
      tataaataa atgcacaat ttagaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY