Status
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Gene information
General information
TC007373 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: 5379890..5382374
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
    TC007373
    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_08122

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    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: % (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
    • >TC007373 RA
      MDFKTVIPS PDAITLNEI NVCLISQFK AVLGVKTYW 
      HKFFIIETF GLTRNVVLK TLLEHVKPL EFIPLFYTQ 
      EGKGAYFFA RICGPVIEK FCRDKLTVP NPFGSRKPF 
      KLKIVLKYT TTYQVTVDL YCRNVLQVL QKRLKSRVL 
      CLNNFVDDP DLNDFLLLS EPKLLAFVL NLAKVLKPT 
      AIKLCNNEI KSLDALKVL RPRSINSLD LRNNLIVDL 
      AELKHLSNF DITELWLEG NPLCDLYDE HSYVEQMVK 
      YCPKIEKLD GFLLRQNGV PSFRRNFLC DVSASDVID 
      QFMRDYFTT YDSKNLDKL ESLYHNDAV FSLTAYHVN 
      NQVSSANSC IKSYKQYSR NLVDTPNRD ENLYTGSRE 
      IMKLFDLLP HCEHDPYSF TVDVMHYSE KRVIVVVTG 
      VFMEIPNVK RILGFNRSF FLEFRDSSL RIANEQLHV 
      FNALTSQQA KAFKKQGVL QEVRNVTEK NQMLNIFVI 
      ITNLTKEWA KLFLEECQY NLKHALLVF VDLYKRDKI 
      PSHGFKPCD
    CDS sequence
    • >TC007373 RA
      atggacttt aagactgtt attccatcc cccgatgca 
      atcactctc aatgaaata aatgtctgc ttaatcagc 
      caatttaaa gctgttctt ggtgtgaag acatactgg 
      cacaagttt tttattatc gaaactttt ggcttaacg 
      cgcaatgtg gtgctaaaa actctccta gaacacgta 
      aaacccttg gaatttatt cccctgttt tacacgcaa 
      gaaggcaaa ggggcgtat ttttttgca agaatttgt 
      ggcccagtt atcgaaaaa ttttgtagg gacaaactg 
      acagtaccc aaccctttt ggctctagg aagcctttc 
      aaattaaaa atagtcctt aaatacacc accacttat 
      caggtgacg gtagacttg tactgcaga aatgtcctg 
      caagtttta caaaaacgc ctcaaatcg cgcgttttg 
      tgtttgaat aatttcgtg gacgatccg gatttgaac 
      gattttctt ctgttatcg gaaccaaag ctcctagct 
      ttcgttcta aacctagct aaagtctta aaacccaca 
      gctattaag ttgtgtaac aatgaaatc aagtctctg 
      gacgcactc aaagtgctg cgaccgcga agtattaac 
      tcgttggat ttacgcaat aacttaatc gtggatctt 
      gcggagtta aagcatttg tcaaatttt gatattact 
      gagttgtgg ttggaagga aaccctctg tgtgacttg 
      tatgacgag cacagttat gtggaacag atggttaag 
      tactgtccc aaaatcgaa aaacttgac ggtttttta 
      ttgaggcaa aacggagtt ccctcgttt cgtagaaat 
      ttcttatgt gatgtttcc gcaagtgat gttattgac 
      cagtttatg cgagattat tttacaact tacgactcc 
      aaaaatctt gataaactt gagtcactg tatcataac 
      gatgccgtg ttttctctt acagcgtat cacgttaat 
      aatcaagtt tcgtcagca aattcgtgc ataaaatca 
      tacaaacag tattccaga aatttggtg gatacacca 
      aaccgggac gaaaattta tacaccgga agtcgtgaa 
      ataatgaaa ttatttgac ttgcttcct cattgtgaa 
      cacgatcct tactcgttt acagttgat gtgatgcat 
      tacagcgaa aaacgtgtc attgttgtt gtaacggga 
      gtctttatg gaaattccc aacgttaaa cgaattttg 
      ggatttaac agatctttt tttctggag tttcgggat 
      agtagctta cgtattgca aacgagcaa ctccacgtt 
      tttaacgcc ttaacttca caacaagcc aaggcgttc 
      aaaaaacag ggagttttg caagaagtc cgaaatgtg 
      actgagaaa aatcaaatg ttgaacatt tttgttatc 
      attacaaac ctgaccaaa gagtgggcc aaactattt 
      ttagaggag tgccaatac aatttgaaa catgccttg 
      ttagttttt gtagattta tataagaga gacaaaatc 
      ccgtctcac ggctttaag ccttgcgat taa
    mRNA sequence
    • >TC007373 RA
      tccactttg cccacctgt tatcagttg tgaccatag 
      aagaagaga gaggtgatt attagtcag tttttgctt 
      aattgtgat aatgataac acacttttc ttgacgatt 
      ttgcaggca ttgcataaa aaagccgac tcggttttt 
      cacttagct gccacgaaa tggacttta agactgtta 
      ttccatccc ccgatgcaa tcactctca atgaaataa 
      atgtctgct taatcagcc aatttaaag ctgttcttg 
      gtgtgaaga catactggc acaagtttt ttattatcg 
      aaacttttg gcttaacgc gcaatgtgg tgctaaaaa 
      ctctcctag aacacgtaa aacccttgg aatttattc 
      ccctgtttt acacgcaag aaggcaaag gggcgtatt 
      tttttgcaa gaatttgtg gcccagtta tcgaaaaat 
      tttgtaggg acaaactga cagtaccca acccttttg 
      gctctagga agcctttca aattaaaaa tagtcctta 
      aatacacca ccacttatc aggtgacgg tagacttgt 
      actgcagaa atgtcctgc aagttttac aaaaacgcc 
      tcaaatcgc gcgttttgt gtttgaata atttcgtgg 
      acgatccgg atttgaacg attttcttc tgttatcgg 
      aaccaaagc tcctagctt tcgttctaa acctagcta 
      aagtcttaa aacccacag ctattaagt tgtgtaaca 
      atgaaatca agtctctgg acgcactca aagtgctgc 
      gaccgcgaa gtattaact cgttggatt tacgcaata 
      acttaatcg tggatcttg cggagttaa agcatttgt 
      caaattttg atattactg agttgtggt tggaaggaa 
      accctctgt gtgacttgt atgacgagc acagttatg 
      tggaacaga tggttaagt actgtccca aaatcgaaa 
      aacttgacg gttttttat tgaggcaaa acggagttc 
      cctcgtttc gtagaaatt tcttatgtg atgtttccg 
      caagtgatg ttattgacc agtttatgc gagattatt 
      ttacaactt acgactcca aaaatcttg ataaacttg 
      agtcactgt atcataacg atgccgtgt tttctctta 
      cagcgtatc acgttaata atcaagttt cgtcagcaa 
      attcgtgca taaaatcat acaaacagt attccagaa 
      atttggtgg atacaccaa accgggacg aaaatttat 
      acaccggaa gtcgtgaaa taatgaaat tatttgact 
      tgcttcctc attgtgaac acgatcctt actcgttta 
      cagttgatg tgatgcatt acagcgaaa aacgtgtca 
      ttgttgttg taacgggag tctttatgg aaattccca 
      acgttaaac gaattttgg gatttaaca gatcttttt 
      ttctggagt ttcgggata gtagcttac gtattgcaa 
      acgagcaac tccacgttt ttaacgcct taacttcac 
      aacaagcca aggcgttca aaaaacagg gagttttgc 
      aagaagtcc gaaatgtga ctgagaaaa atcaaatgt 
      tgaacattt ttgttatca ttacaaacc tgaccaaag 
      agtgggcca aactatttt tagaggagt gccaataca 
      atttgaaac atgccttgt tagtttttg tagatttat 
      ataagagag acaaaatcc cgtctcacg gctttaagc 
      cttgcgatt aattttttt gagaattat ttttgagtt 
      gaataaatt tttctggtg cgt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY