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Gene information
General information
TC005343 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_007423.3: 14253330..14255648
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
    TC005343
    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
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    Name
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    Email
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    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_03940

    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: 3 (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: 40.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 50.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection


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


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005343 RA
      MTSTPNDSF NTSDQLMDL SLKNFWVIV HYPCSDPEC 
      EYEIVGKKD LVFDSWEVL ERGAVVTVK YGNARVQGI 
      VVTVSDDYN LLSANLEDY IQEYKEIKF EESRSSYEK 
      RGNFRHVIK IADKETQTD FCDVENATL KRQYEELQN 
      KYNDLKLAV TDVKAELKT TILKLDVEG TFKTPLQPL 
      NDNKENSKQ MVQIGSGGT KIPRQVYNS IKWASYSAA 
      TRKLLITLF PRSVLATHS LTGKPSPAF ISSNKQTKM 
      RLNPTIISD IIEIVMKKC LVSEPLVRN AITTKCADE 
      NKMYKKRLE RQQVESDDE NNVKKVKLN
    CDS sequence
    • >TC005343 RA
      atgacttca acccccaat gattcgttt aatacaagc 
      gaccagtta atggaccta tccctgaaa aacttctgg 
      gtcattgtg cattatccc tgtagcgac ccagagtgc 
      gaatatgaa atcgtgggc aagaaggac ctagttttt 
      gactcctgg gaggtgtta gaacgtggc gctgttgtc 
      acagttaag tatggtaac gcaagagtg caaggaatc 
      gtagtcaca gtctcagac gactataat ttgctgtcg 
      gcgaatttg gaggattat atccaagaa tacaaagag 
      ataaagttt gaagaatcg agaagctcg tacgaaaag 
      cgcggaaac ttccgtcat gtaattaaa atcgccgat 
      aaagaaacg caaacagac ttttgcgac gttgaaaac 
      gcgacacta aaacgccaa tatgaggaa ctgcaaaat 
      aaatacaac gatttgaaa ttggcagtc actgatgtg 
      aaagccgaa ctgaaaacc acaattttg aaactcgac 
      gttgaagga acgttcaaa accccctta caaccactg 
      aacgacaac aaagaaaac tccaaacaa atggtgcag 
      attggctca ggtggcacg aaaatcccc cgtcaagtc 
      tacaattcg atcaaatgg gccagttat tcagcagcc 
      acccgaaaa ttactaatt acacttttc ccacgtagt 
      gtgcttgct acgcattcg ctaacggga aaaccaagt 
      cccgctttt atctccagt aataagcaa acgaaaatg 
      agattgaac ccgacaatc atttccgat atcatcgaa 
      attgtcatg aaaaaatgt ctcgtttcg gagccgttg 
      gtccgaaat gccattacg accaaatgc gccgacgaa 
      aataaaatg tacaagaaa cgactagaa cgacagcag 
      gttgaaagc gatgacgaa aacaacgtc aagaaagtc 
      aaacttaat taa
    mRNA sequence
    • >TC005343 RA
      agtgaaact ccactctcg aaaaattct aataggata 
      acggctttg ggggtttgc tatttgaat cttactaga 
      gttcagtcg tggcagatg cgtagtcgt gaagtgata 
      atttcaaaa aataaatca gaatttgta acactacac 
      gaccaaata attgcgcca taaatttcc gtaaaaatt 
      tccctcgtg gtggctcac attcacgat gacttcaac 
      ccccaatga ttcgtttaa tacaagcga ccagttaat 
      ggacctatc cctgaaaaa cttctgggt cattgtgca 
      ttatccctg tagcgaccc agagtgcga atatgaaat 
      cgtgggcaa gaaggacct agtttttga ctcctggga 
      ggtgttaga acgtggcgc tgttgtcac agttaagta 
      tggtaacgc aagagtgca aggaatcgt agtcacagt 
      ctcagacga ctataattt gctgtcggc gaatttgga 
      ggattatat ccaagaata caaagagat aaagtttga 
      agaatcgag aagctcgta cgaaaagcg cggaaactt 
      ccgtcatgt aattaaaat cgccgataa agaaacgca 
      aacagactt ttgcgacgt tgaaaacgc gacactaaa 
      acgccaata tgaggaact gcaaaataa atacaacga 
      tttgaaatt ggcagtcac tgatgtgaa agccgaact 
      gaaaaccac aattttgaa actcgacgt tgaaggaac 
      gttcaaaac ccccttaca accactgaa cgacaacaa 
      agaaaactc caaacaaat ggtgcagat tggctcagg 
      tggcacgaa aatcccccg tcaagtcta caattcgat 
      caaatgggc cagttattc agcagccac ccgaaaatt 
      actaattac acttttccc acgtagtgt gcttgctac 
      gcattcgct aacgggaaa accaagtcc cgcttttat 
      ctccagtaa taagcaaac gaaaatgag attgaaccc 
      gacaatcat ttccgatat catcgaaat tgtcatgaa 
      aaaatgtct cgtttcgga gccgttggt ccgaaatgc 
      cattacgac caaatgcgc cgacgaaaa taaaatgta 
      caagaaacg actagaacg acagcaggt tgaaagcga 
      tgacgaaaa caacgtcaa gaaagtcaa acttaatta 
      aatttagcg ccatcactt gtacagttt tctgcaatt 
      atatgtgga cggtttgga gcggctttg ataggtggc 
      gcggcacga acaagtcga ttaaatgtt aatctgatc 
      caaaaatcc tttttttaa ttttatttc aaaagctag 
      ttatttcaa attcaaatt aatggctga ttatatttg 
      caaattgcc tgcttgacg tcacacgtg ccctagaaa 
      ttttttacc attttaaat ttctccaag ttggtccaa 
      aacggttta attggacga gttgacgtc atttcatcc 
      cattagaat ttttgtttg cttccgcaa ttagaaccc 
      agttagagt gctttgcta aaaactttc gtaaacaca 
      actgacatc ttcattcaa tagtgtttt tttaatgcc 
      aacatttgt attgtctat taaaactta acataaaat 
      taccttaac taccttaat ttagtcaga gcaaattcc 
      ttcgtttaa ttaacgaaa taaacggca caatacggg 
      cgtttattg ttaaatgtc caataaaac agcatttgc 
      tgattcaaa cgtgaaagt cacagtgaa ggttcctgc 
      aaggtttat gctgttgct aactcgccg gctttagct 
      gggagaaaa ttaataatg caagaaaga cgctgttta 
      ctggaggaa atatctcaa gcatccaaa agtcaagtt 
      tcgtctgat gtgtagtgt tttaatcga tggacagcg 
      agataatgt ggttgtaga tgaaagata actcaaatt 
      acttgggat gtacatggg ggatccaca atttaatta 
      gtttgtaca cggctacca acatactgc accagttta 
      gatctcttg ttccgcccg catgcatta atcaggctg 
      ttaattagg cgtgggttc atgtccagt ttattaatt 
      ctacgtgaa tcaaaaatt aataaacca cattgcatt 
      tg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY