Status
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Gene information
General information
TC003289 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: 804806..809587
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
    TC003289
    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_00547

    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: < 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: 20.0% (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: 2 (11 dpi)
    Days post injection


    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (41 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC003289 RA
      MTSETKGSP VLQYIAAVT GTLAIVTDG MIYGWSSPS 
      LPQLKNNET CTLCIDENQ GSNLAVMPL VGAVIGSLT 
      AATIVDILG RKRTILATA VPFFLSWIM VAFAPSIVL 
      LYIARLIAG IADGVTFTV VPMYIGEIA DPQVRGMLG 
      SSCSVTWIA GFLIINVIG SYLSIKTTA LVSSIVPAI 
      LFITFLWMP ESPYYLLMR GRADEARKS LERLKKREN 
      VSGDLNRIR NAIQAEEKS HNGKFVDLF RVKSNRKAV 
      FIIGGLRGF QQLAGTTAI AFYTHEIFQ TAGDHISAH 
      YAVMIYYSI QLLLTMFSS SIVDKAGRR PLLIISMAG 
      SALALFVEG TYFYLLNET DIDTSSFSI VAVVGLLAF 
      VIIFSLGMQ SIPICMLGE LFPTNVKAF ALCLADVYF 
      SVMATVASK YLQITKVEY GLHVSFYGF GICSLLGLV 
      FIYFFVPET KGKTLEDIQ KKLRGEVEV CDERGAEEE 
      KVSLKA
    CDS sequence
    • >TC003289 RA
      atgacgtca gaaacgaag ggtagtcct gtcttacaa 
      tacattgct gccgtcact ggcactttg gccatcgtc 
      accgacggc atgatctac ggctggtcg tcccccagc 
      ctcccccag ctcaaaaac aacgagact tgcaccttg 
      tgcattgac gaaaaccag ggctccaac ctggccgtc 
      atgcccctg gtgggggcg gtcatcggc tcgctcacc 
      gccgccacc atcgtcgac atcctgggc cgcaaacgc 
      accatcctt gccaccgcc gtccccttc ttcctctcc 
      tggataatg gtggctttc gcccccagc atcgtcctc 
      ctctacatc gcgcgttta atcgccggc atcgccgac 
      ggcgtcacc ttcaccgtc gtccccatg tacatcggc 
      gagatcgcc gacccccag gtgcgaggg atgctcggc 
      tccagctgc tccgtgacc tggatcgcc ggttttctc 
      atcataaat gtgataggg tcgtacctt agtattaaa 
      accacggca cttgtgtcc tcaattgtg ccggcaatc 
      ctatttatt acattcttg tggatgccg gaaagtccg 
      tactatttg ttaatgcgt gggagggcg gacgaggcc 
      cggaaatca ctagaacgc ctcaaaaaa cgcgaaaat 
      gtctccggg gatttgaac cgaatccgg aacgcaatc 
      caggctgag gaaaagtcg cacaatggg aaattcgtc 
      gacttgttc cgggtgaag agcaaccgg aaggccgtt 
      ttcatcatc ggggggctc cggggcttc cagcaattg 
      gcggggacc acggctatt gccttctac acccatgag 
      attttccaa actgctggg gaccacatt tccgcacat 
      tacgctgtg atgatttac tactccatc cagttgctc 
      ctcacaatg ttctcctcg agtattgtg gataaggcc 
      ggtcgaaga ccactgttg atcatctca atggcgggg 
      tcggcgtta gcccttttt gtcgaaggg acctatttt 
      tatcttttg aacgaaacg gacattgat acgagctca 
      ttttcgatc gtggccgtt gtggggctt ctagctttt 
      gtgataatt ttcagttta gggatgcag tcaatcccg 
      atttgtatg ttaggggag ttgtttccc acaaatgtg 
      aaagctttt gcgctttgt ttggccgat gtttacttc 
      agtgtgatg gccacagtg gcctccaag tacttacaa 
      ataactaaa gtagaatac ggactacat gtctcgttt 
      tacggtttc gggatttgt tcgctactt ggactagtt 
      tttatttat ttctttgtg cctgaaacg aaaggaaaa 
      accctcgaa gacatccag aaaaaactg agaggggaa 
      gtcgaagtt tgtgatgaa cgaggcgcc gaagaagag 
      aaagttagt ctcaaagcg taa
    mRNA sequence
    • >TC003289 RA
      tgagtgaaa ctgcacgca gacgttgaa cgacactca 
      ctcgaactg gttggaagt ggtttcatt tcgaaaatt 
      ttctttgtg cttgctttt gcaaaaaac gatcttaat 
      tttattgtt gtgtggaga ctcagttcc ttcagagac 
      ttgaagacg acaacatga cgtcagaaa cgaagggta 
      gtcctgtct tacaataca ttgctgccg tcactggca 
      ctttggcca tcgtcaccg acggcatga tctacggct 
      ggtcgtccc ccagcctcc cccagctca aaaacaacg 
      agacttgca ccttgtgca ttgacgaaa accagggct 
      ccaacctgg ccgtcatgc ccctggtgg gggcggtca 
      tcggctcgc tcaccgccg ccaccatcg tcgacatcc 
      tgggccgca aacgcacca tccttgcca ccgccgtcc 
      ccttcttcc tctcctgga taatggtgg ctttcgccc 
      ccagcatcg tcctcctct acatcgcgc gtttaatcg 
      ccggcatcg ccgacggcg tcaccttca ccgtcgtcc 
      ccatgtaca tcggcgaga tcgccgacc cccaggtgc 
      gagggatgc tcggctcca gctgctccg tgacctgga 
      tcgccggtt ttctcatca taaatgtga tagggtcgt 
      accttagta ttaaaacca cggcacttg tgtcctcaa 
      ttgtgccgg caatcctat ttattacat tcttgtgga 
      tgccggaaa gtccgtact atttgttaa tgcgtggga 
      gggcggacg aggcccgga aatcactag aacgcctca 
      aaaaacgcg aaaatgtct ccggggatt tgaaccgaa 
      tccggaacg caatccagg ctgaggaaa agtcgcaca 
      atgggaaat tcgtcgact tgttccggg tgaagagca 
      accggaagg ccgttttca tcatcgggg ggctccggg 
      gcttccagc aattggcgg ggaccacgg ctattgcct 
      tctacaccc atgagattt tccaaactg ctggggacc 
      acatttccg cacattacg ctgtgatga tttactact 
      ccatccagt tgctcctca caatgttct cctcgagta 
      ttgtggata aggccggtc gaagaccac tgttgatca 
      tctcaatgg cggggtcgg cgttagccc tttttgtcg 
      aagggacct atttttatc ttttgaacg aaacggaca 
      ttgatacga gctcatttt cgatcgtgg ccgttgtgg 
      ggcttctag cttttgtga taattttca gtttaggga 
      tgcagtcaa tcccgattt gtatgttag gggagttgt 
      ttcccacaa atgtgaaag cttttgcgc tttgtttgg 
      ccgatgttt acttcagtg tgatggcca cagtggcct 
      ccaagtact tacaaataa ctaaagtag aatacggac 
      tacatgtct cgttttacg gtttcggga tttgttcgc 
      tacttggac tagttttta tttatttct ttgtgcctg 
      aaacgaaag gaaaaaccc tcgaagaca tccagaaaa 
      aactgagag gggaagtcg aagtttgtg atgaacgag 
      gcgccgaag aagagaaag ttagtctca aagcgtaat 
      tttattgaa taaagtact tattttttt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY