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Gene information
General information
TC014396 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_007420.3: 10048613..10050636
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
    TC014396
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05623

    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: 20.0% (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 embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larval musculature fluorescence decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    cuticle remnants without visible segmentation, differentiation or axis - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    cuticle everted (inside-out) - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    thorax everted (inside-out) - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    Comment: Thorax sometimes patially upended.  
    abdomen everted (inside-out) - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen everted (inside-out) - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    Comment: Thorax sometimes patially upended.  
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    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: 40.0% (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: 2 (16 dpi)
    Days post injection

    Comment: potentially cannibalized by adults

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC014396 RA
      MEDELDDKI LYQTYVSHM KLMSRIAWG VPLNISPLA 
      YTSHVWRLL KVYMLKPEI IIFGTIVLF MLMYMQALD 
      VWSRNLLGR LQYTINRAP RTAPDKLSL FTGGDLDKA 
      SWELKIGPY AAYAVQGRR PKMEDRFVI NDNINNTGV 
      ALFAVFDGH GGEFAANYA KEKLIQSLY GRVVEIKDM 
      IAGKTTKTC DDEDEPEKK DPEKPPTPS LAERRKSFR 
      KTSSTTDEC IKGAKEITD TELLSKLDN IPRPITREV 
      RPSSRPQSF KKIPSTSYF DKAGTVNYG KLLTDEVLA 
      ADQRLLETA KKSMDVAGT TALIAILEG AKLIVANVG 
      DSRGVMCDN KGNVIPLSF DHKPQQMRE RKRIKEAGG 
      FVTFNGVWR VAGILATSR ALGDYPLKD KKLVIADPD 
      ILTFDLNDH KPMFVILAS DGLWDTFSN EEAISFIKE 
      RLNEPDYGA KSLTLQSYY RGSLDNITV IVINFRDNA 
      FSFHSAEKS A
    CDS sequence
    • >TC014396 RA
      atggaagac gaattagac gacaaaatc ctataccaa 
      acgtacgtg tcccacatg aaactcatg tctcggatc 
      gcgtggggc gtccctcta aacatctcc ccgttagcg 
      tacacctcg cacgtatgg agactcctc aaagtgtac 
      atgttgaaa ccggagata atcattttc ggcacgata 
      gtgttgttc atgttgatg tatatgcaa gcccttgat 
      gtatggagt cgtaatttg ctagggcgc ctgcagtac 
      accatcaac cgcgccccc aggaccgcc cccgacaag 
      ctcagcctc ttcacgggc ggcgacctg gacaaggct 
      agctgggag ctcaaaatc ggcccctac gccgcctac 
      gccgtccag gggcggcgc cccaagatg gaagaccgc 
      ttcgtcatc aacgacaac atcaacaac accggcgtc 
      gccctcttc gccgtcttc gacggccac ggcggcgaa 
      ttcgccgcc aattacgcc aaagagaag ctcatccag 
      agcctctac ggacgcgtg gtcgagatc aaagacatg 
      attgcgggg aaaaccacc aagacgtgc gacgacgag 
      gacgagccc gagaaaaaa gacccggaa aagcccccc 
      actccgagc ctcgccgag cgccggaaa agcttccgg 
      aaaaccagc tccaccaca gatgaatgc atcaaaggt 
      gccaaagaa atcacagac actgaacta ctgtcaaaa 
      ctggacaat atcccgaga cctataacc agggaagtg 
      cgcccgtct tcacgcccc caatcgttc aaaaaaatc 
      ccttcaacg agttacttc gacaaagcg ggaacagtc 
      aactacggg aaactgctc acagacgag gtgttggcc 
      gccgaccaa cgcttgctc gaaacggcc aagaagagc 
      atggacgtg gccgggacc acagccctg attgcaatc 
      ctcgaaggc gcgaaattg atcgtggcc aacgtgggg 
      gactcccgg ggggtgatg tgcgacaat aaaggcaac 
      gtcatcccc ctgtccttc gaccacaag ccgcaacaa 
      atgcgcgag aggaaacgc atcaaagag gcgggcggt 
      tttgtcacg tttaacggc gtctggagg gtggccggc 
      atcttagcc acgtccaga gcgctcggg gattacccg 
      ctcaaagac aagaaatta gtcatcgcc gatccggat 
      attctcacg ttcgattta aacgaccac aagccgatg 
      tttgtgatt ttggcttcc gatggattg tgggacact 
      ttctcgaac gaagaagcg atcagtttt attaaagaa 
      cgactgaac gaacccgat tatggtgcg aaaagctta 
      actttacag tcgtattat cgcggttct ttggataat 
      atcaccgtt atcgtgatt aatttcaga gataacgcc 
      tttagcttc cacagtgcg gagaagagc gcttag
    mRNA sequence
    • >TC014396 RA
      ttggaaatt tttgtagag gactcgtat gcaaaacaa 
      gcgatggca aaaggatag aggccgtgt tcatgttta 
      gccaagccc gttaaagta gaatggaag acgaattag 
      acgacaaaa tcctatacc aaacgtacg tgtcccaca 
      tgaaactca tgtctcgga tcgcgtggg gcgtccctc 
      taaacatct ccccgttag cgtacacct cgcacgtat 
      ggagactcc tcaaagtgt acatgttga aaccggaga 
      taatcattt tcggcacga tagtgttgt tcatgttga 
      tgtatatgc aagcccttg atgtatgga gtcgtaatt 
      tgctagggc gcctgcagt acaccatca accgcgccc 
      ccaggaccg cccccgaca agctcagcc tcttcacgg 
      gcggcgacc tggacaagg ctagctggg agctcaaaa 
      tcggcccct acgccgcct acgccgtcc aggggcggc 
      gccccaaga tggaagacc gcttcgtca tcaacgaca 
      acatcaaca acaccggcg tcgccctct tcgccgtct 
      tcgacggcc acggcggcg aattcgccg ccaattacg 
      ccaaagaga agctcatcc agagcctct acggacgcg 
      tggtcgaga tcaaagaca tgattgcgg ggaaaacca 
      ccaagacgt gcgacgacg aggacgagc ccgagaaaa 
      aagacccgg aaaagcccc ccactccga gcctcgccg 
      agcgccgga aaagcttcc ggaaaacca gctccacca 
      cagatgaat gcatcaaag gtgccaaag aaatcacag 
      acactgaac tactgtcaa aactggaca atatcccga 
      gacctataa ccagggaag tgcgcccgt cttcacgcc 
      cccaatcgt tcaaaaaaa tcccttcaa cgagttact 
      tcgacaaag cgggaacag tcaactacg ggaaactgc 
      tcacagacg aggtgttgg ccgccgacc aacgcttgc 
      tcgaaacgg ccaagaaga gcatggacg tggccggga 
      ccacagccc tgattgcaa tcctcgaag gcgcgaaat 
      tgatcgtgg ccaacgtgg gggactccc ggggggtga 
      tgtgcgaca ataaaggca acgtcatcc ccctgtcct 
      tcgaccaca agccgcaac aaatgcgcg agaggaaac 
      gcatcaaag aggcgggcg gttttgtca cgtttaacg 
      gcgtctgga gggtggccg gcatcttag ccacgtcca 
      gagcgctcg gggattacc cgctcaaag acaagaaat 
      tagtcatcg ccgatccgg atattctca cgttcgatt 
      taaacgacc acaagccga tgtttgtga ttttggctt 
      ccgatggat tgtgggaca ctttctcga acgaagaag 
      cgatcagtt ttattaaag aacgactga acgaacccg 
      attatggtg cgaaaagct taactttac agtcgtatt 
      atcgcggtt ctttggata atatcaccg ttatcgtga 
      ttaatttca gagataacg cctttagct tccacagtg 
      cggagaaga gcgcttagg aagcggggt tttgctcaa 
      gttagctga gatttgtac ctgcggttt agtctaggc 
      catttcgtg ttgattaaa ttttttacc gattctggc 
      ggccggtga ggcccgcga gtcgattca tgttgatta 
      cgtgttgtt ttaagtttc aaagaacta ttactctaa 
      aaatggctg taaggtttg ttgatcttt tttctcgat 
      gtatacaat aaaaaacga tttaaaacg atggctctc 
      tttattttc cttcaattg ccaacggta catttttat 
      ttacaaata aatcccgca ctatattaa ctgattgtg 
      gattataca cggggaaca aaactacgg aaccattta 
      tttacagca ttatagagt atactgcta aggtctggt 
      cgttccgtc agaactttt ttttaaagt ctatttatg 
      ataaaggtt ataatataa aaatcaatt atctaaata 
      aaatgttta tgaactact actaataat aaatgtttt 
      ggtggcat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY