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Gene information
General information
TC004734 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_007416.3: 4127491..4129067
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
    TC004734
    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_08558

    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: 70.0% (includes death as pupa, adult)

    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: 3 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 3 (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: % (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
    • >TC004734 RA
      MALTWEDKE VRFDIPFTE MRLKTGEKI IDRLENIED 
      TKGNGGDRG RLIVTNIRV LWHSVTSPR VNLSIGFNC 
      VVTINTKVV NSKLRGTTQ ALHILTSSN GTRFEFIFT 
      NLVPGSTRH FTSVMGVHK AYISSKLYR ELKLRGAVI 
      HNKQLKILP LEQVFSTLH GVWNLSSDQ GSLGTFIVT 
      NVRFVWFAD MNEGFNISL PYLQISSIK IRDSKFGTA 
      LVVTSTEIS GTYVLGFRV DPEEKLRIL YKELVSLHS 
      VYKTSPIFG VEYKWCKGE EQANRKLME DVVEIEEPR 
      GEMSNVLAA YLADEGHEK DRPVVYSPE LGLAIEGVK 
      EGFTLQKLW EVLPS
    CDS sequence
    • >TC004734 RA
      atggcgctc acgtgggaa gataaagaa gtccgattt 
      gatattccc ttcacggag atgcggtta aaaaccggc 
      gaaaaaatc atcgatagg ctggaaaat atcgaagat 
      acgaaaggt aatgggggc gatcgtgga agacttatc 
      gtcaccaat atcagagtt ttgtggcac tcggtgacc 
      agtcctcgt gttaatttg tcgatagga ttcaactgt 
      gttgtcaca atcaataca aaggtggtc aattcaaaa 
      ttgagaggg accacgcaa gcccttcac attctaaca 
      tcttcgaat ggcactcgg tttgaattc attttcacc 
      aacttagtg ccaggcagt acgcggcat ttcacttcg 
      gtcatggga gttcacaaa gcctacatc tcgtcaaaa 
      ctctaccgg gagctgaag ttgcgcggg gctgtgatt 
      cacaataaa caattaaaa atcctgcct ctggagcag 
      gtgttttcc acactgcac ggggtctgg aacttgtcg 
      agcgaccaa ggcagttta ggcactttc atcgtaaca 
      aacgtgcgt tttgtgtgg tttgctgac atgaacgag 
      ggtttcaac atctctctg ccgtatttg cagatcagt 
      tctataaaa atccgcgac tcgaaattt gggacagca 
      ctggttgtc acaagtacg gaaatcagc ggtacgtac 
      gtgttaggc tttcgagtg gatcctgag gagaagttg 
      cggattttg tacaaggag ttggtttcg ttgcattcg 
      gtttacaag acgagcccg atttttggg gttgaatac 
      aagtggtgt aaaggggag gagcaagcg aatcggaaa 
      ctgatggag gatgtagtc gagattgag gaacctcgg 
      ggggaaatg tcgaatgtc ttggcggcc tatttggcc 
      gatgaaggg catgagaag gacagaccc gtggtgtat 
      tcccccgaa ttggggctc gcaattgag ggagttaag 
      gaagggttc actttgcag aagttgtgg gaggtgtta 
      ccgtcataa
    mRNA sequence
    • >TC004734 RA
      acaaacaaa agctcctaa aatggcgct cacgtggga 
      agataaaga agtccgatt tgatattcc cttcacgga 
      gatgcggtt aaaaaccgg cgaaaaaat catcgatag 
      gctggaaaa tatcgaaga tacgaaagg taatggggg 
      cgatcgtgg aagacttat cgtcaccaa tatcagagt 
      tttgtggca ctcggtgac cagtcctcg tgttaattt 
      gtcgatagg attcaactg tgttgtcac aatcaatac 
      aaaggtggt caattcaaa attgagagg gaccacgca 
      agcccttca cattctaac atcttcgaa tggcactcg 
      gtttgaatt cattttcac caacttagt gccaggcag 
      tacgcggca tttcacttc ggtcatggg agttcacaa 
      agcctacat ctcgtcaaa actctaccg ggagctgaa 
      gttgcgcgg ggctgtgat tcacaataa acaattaaa 
      aatcctgcc tctggagca ggtgttttc cacactgca 
      cggggtctg gaacttgtc gagcgacca aggcagttt 
      aggcacttt catcgtaac aaacgtgcg ttttgtgtg 
      gtttgctga catgaacga gggtttcaa catctctct 
      gccgtattt gcagatcag ttctataaa aatccgcga 
      ctcgaaatt tgggacagc actggttgt cacaagtac 
      ggaaatcag cggtacgta cgtgttagg ctttcgagt 
      ggatcctga ggagaagtt gcggatttt gtacaagga 
      gttggtttc gttgcattc ggtttacaa gacgagccc 
      gatttttgg ggttgaata caagtggtg taaagggga 
      ggagcaagc gaatcggaa actgatgga ggatgtagt 
      cgagattga ggaacctcg gggggaaat gtcgaatgt 
      cttggcggc ctatttggc cgatgaagg gcatgagaa 
      ggacagacc cgtggtgta ttcccccga attggggct 
      cgcaattga gggagttaa ggaagggtt cactttgca 
      gaagttgtg ggaggtgtt accgtcata aaaacaacc 
      aatcgtttc agtacattt attcactat cctactgtg 
      ttgtttatg atgaaatca gattgtaga aatttttat 
      aaataatag ttggtctct gcaactact caattcagt 
      catccataa ttgcaacat ctatgataa atagaacac 
      ttaaggata tctacagca atctagaca tttattatt 
      acattatca ataaatatc aaataaata g
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY