Status
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Gene information
General information
TC007407 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_007419.2: 4959576..4961761
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
    TC007407
    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_10949

    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: 0.0% (includes death as pupa, adult)

    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
    • >TC007407 RA
      MDSSGDKPQ ESPQDIVAA LQEKVNSLY LYRDHYFET 
      HKIDDAIHK NGDVEKKLS EILGVFNEC EKRASGGDR 
      AKFCFLKGR ALNVVPKFS KEAESLLSK AVKLDPKCV 
      EAWNELGEC FWKNNELKK AMNCFEGAL KERKNKVSL 
      RNLSMLARQ ETSSSRENL INNIEKGLN YAKEAVQLD 
      PQDGLSWAV LGNAHLSSF FGIQQNPKT LKQCLSAYS 
      QAEKDIVAK STPDLHYNK GITLKYEEE FELALESFN 
      KAALYDPTW DQPKIKEKQ LVRYLNEIT DLVTTSGKM 
      KAKRLQQIL QSIDSKQLG PYAGGSYTS SANQTVKLD 
      EIPLGGLKP GLNEEKVVL GKVVCSVQN EDSVPFTFC 
      LVDKLGTCV VVTVFNLAD GKGVIIGNS VAIPEPYVT 
      DVDFTYKDN EYKFRLIRV ETPLVMVVN GKKVNRDLQ 
      AGVQMSIFN KYD
    CDS sequence
    • >TC007407 RA
      atggattca agcggtgac aagccccag gaatctccc 
      caagacatt gtagccgcc ctccaggaa aaagttaat 
      agcttgtac ttataccgg gaccattat tttgaaact 
      cataagatc gacgatgcc attcataaa aatggagat 
      gttgagaaa aaattatct gagatttta ggagtattt 
      aatgagtgc gagaaacgg gcttcgggg ggcgatagg 
      gccaagttt tgttttctc aaaggtagg gcgttaaat 
      gttgtgcct aagtttagc aaagaagcg gaaagtttg 
      ctctctaag gctgttaaa ttggatcct aagtgtgtt 
      gaggcttgg aatgagtta ggggagtgt ttttggaaa 
      aataatgag ttgaagaag gcgatgaat tgctttgag 
      ggggcgctc aaagaacgc aagaataaa gtctcgtta 
      aggaatctc tcaatgttg gcaaggcag gaaacttca 
      agtagtagg gaaaattta ataaataac atagaaaaa 
      ggcttaaac tatgcaaaa gaagctgtc cagttggac 
      ccccaagat ggtctctca tgggctgtt ttaggaaat 
      gcccactta tcatcattt ttcggtatt caacaaaat 
      ccaaaaacg ctaaagcaa tgcttaagt gcctactct 
      caagccgag aaagatatt gtggccaaa agtactcca 
      gacttacac tataacaaa ggaataact ttaaaatat 
      gaggaagag tttgaattg gcgcttgaa tcgtttaat 
      aaggcggct ctgtatgat cccacgtgg gaccaaccc 
      aaaatcaag gaaaaacaa ctcgttaga tatttaaat 
      gagattacc gatttagtc acaacaagt ggtaaaatg 
      aaagcgaag cgtttacaa caaattttg caatcgatt 
      gattcaaag caattgggg ccgtacgcc ggtggcagt 
      tatacctcg tcggcgaat caaaccgtc aaacttgac 
      gaaattcct ttgggtggc ttaaagccg ggtttaaat 
      gaggaaaaa gtggttttg gggaaagtg gtgtgtagt 
      gtgcaaaac gaggattcg gttcctttt acattctgt 
      ttggtggat aaattagga acttgcgtc gtagtaaca 
      gtttttaat ttggccgac ggtaaaggt gtgattatc 
      ggtaattca gtggcaatt cccgaaccc tacgtgact 
      gatgtggat tttacgtat aaagataat gaatacaag 
      tttcgttta atccgagta gagacaccg cttgtgatg 
      gttgtgaat ggcaaaaaa gtgaatcgg gatcttcaa 
      gccggtgtc cagatgtca atttttaac aaatatgat 
      tga
    mRNA sequence
    • >TC007407 RA
      ttcataatt ataatgtaa tacaatcgc ataacacaa 
      tttaattaa gtaagacct gatgggtgt tagactgca 
      tgtgttaca acaccccca ccattgctt tcatctgac 
      aataaagcg acataacct ttcttgtca aaacaatca 
      cattttttg aagaaatgc ttttctttg aatcttgaa 
      aatggattc aagcggtga caagcccca ggaatctcc 
      ccaagacat tgtagccgc cctccagga aaaagttaa 
      tagcttgta cttataccg ggaccatta ttttgaaac 
      tcataagat cgacgatgc cattcataa aaatggaga 
      tgttgagaa aaaattatc tgagatttt aggagtatt 
      taatgagtg cgagaaacg ggcttcggg gggcgatag 
      ggccaagtt ttgttttct caaaggtag ggcgttaaa 
      tgttgtgcc taagtttag caaagaagc ggaaagttt 
      gctctctaa ggctgttaa attggatcc taagtgtgt 
      tgaggcttg gaatgagtt aggggagtg tttttggaa 
      aaataatga gttgaagaa ggcgatgaa ttgctttga 
      gggggcgct caaagaacg caagaataa agtctcgtt 
      aaggaatct ctcaatgtt ggcaaggca ggaaacttc 
      aagtagtag ggaaaattt aataaataa catagaaaa 
      aggcttaaa ctatgcaaa agaagctgt ccagttgga 
      cccccaaga tggtctctc atgggctgt tttaggaaa 
      tgcccactt atcatcatt tttcggtat tcaacaaaa 
      tccaaaaac gctaaagca atgcttaag tgcctactc 
      tcaagccga gaaagatat tgtggccaa aagtactcc 
      agacttaca ctataacaa aggaataac tttaaaata 
      tgaggaaga gtttgaatt ggcgcttga atcgtttaa 
      taaggcggc tctgtatga tcccacgtg ggaccaacc 
      caaaatcaa ggaaaaaca actcgttag atatttaaa 
      tgagattac cgatttagt cacaacaag tggtaaaat 
      gaaagcgaa gcgtttaca acaaatttt gcaatcgat 
      tgattcaaa gcaattggg gccgtacgc cggtggcag 
      ttatacctc gtcggcgaa tcaaaccgt caaacttga 
      cgaaattcc tttgggtgg cttaaagcc gggtttaaa 
      tgaggaaaa agtggtttt ggggaaagt ggtgtgtag 
      tgtgcaaaa cgaggattc ggttccttt tacattctg 
      tttggtgga taaattagg aacttgcgt cgtagtaac 
      agtttttaa tttggccga cggtaaagg tgtgattat 
      cggtaattc agtggcaat tcccgaacc ctacgtgac 
      tgatgtgga ttttacgta taaagataa tgaatacaa 
      gtttcgttt aatccgagt agagacacc gcttgtgat 
      ggttgtgaa tggcaaaaa agtgaatcg ggatcttca 
      agccggtgt ccagatgtc aatttttaa caaatatga 
      ttgattgta attcacacg cgtttgtaa ttcagaatg 
      agagtggtg cagccaata ctggaacct gtatttttc 
      agccagaaa ttaattgta aataaaaga tttttgatc 
      at
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY