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Gene information
General information
TC014346 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: 9462361..9464224
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
    TC014346
    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_05614

    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: 40.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 2 (9 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, no fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

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

    embryo/egg with embryonic tissue potentially present, 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): 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
    egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): less than 30%
    cuticle remnants without visible segmentation, differentiation or axis - Penetrance (percentage of animals/eggs on slide): less than 30%

    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    appendages partially remaining - Penetrance (percentage of animals/eggs on slide): less than 30%
    Comment: mostly head parts remaining
    head not present - Penetrance (percentage of animals/eggs on slide): less than 30%

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

    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen partially everted (inside-out) - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen partially not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen everted (inside-out) - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen not present - 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): 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: -1.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: -1.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC014346 RA
      MFLFDLQVS VIQLLSLFG VSILSGYYF YYRYCYTYW 
      KKKGVPTSK PRFPFGDLS SSAWGKQSV YSRLETLYH 
      QFKAKGYKH AGIYFFNGP IYFPIDPDL VKRVLVTDF 
      EYFVDRGMY GNGDELPLS CHIFSMKGE EWKNIRTKM 
      SPSFTAGKM KSIYNIVVH NCENLVKVF QPLAETRTV 
      IDIKDILMR FTADVIGST SFGIDCNSL DHPDTEFSR 
      MVNRISNHS GWKLLRVAL EEGLQNPGN IEKIAYNDK 
      VVEDFFTNL VKETMEYRD KNNIIRNDF LHMLMQLRE 
      SAGMSLKEI VSQSFLFFI AGFKTSALT MCYCIHELA 
      HSQDLQDKV REEIHKNLG RDVSKYAYE ELIALPTLD 
      KVVKETMRK YPPLPMLNR ICVKSYQVP GTDVVIDKD 
      TPVIIPVLG LQRDPEFYP EPLKFDPER FSNDNNIVP 
      YTYLPFGDG PRNCIGLRF GMVKTKLAV AALLNNFRF 
      LASSKTRRN LAIDPSTTS ILFNVSEGI YTKIIKV
    CDS sequence
    • >TC014346 RA
      atgtttctc tttgattta caagtgtcg gtcattcaa 
      ctgctttca ctttttggt gtctcaatt ctctccggg 
      tactacttc tattatcgg tactgctac acctattgg 
      aagaagaaa ggcgttcca accagcaaa cctcggttt 
      ccatttggg gatctgtca tcgtcagcg tggggtaaa 
      caaagtgtt tacagtcga ctggagacg ctctaccac 
      cagttcaaa gccaaagga tataaacat gccgggatt 
      tattttttc aacgggccc atatatttt cccatagac 
      ccagatctg gtcaaacga gtgctagtg accgatttc 
      gagtatttc gtagataga ggaatgtac ggaaacggg 
      gatgagtta cctctcagt tgccacatt ttctcaatg 
      aagggggaa gagtggaaa aatattaga acgaaaatg 
      tcgcctagt ttcacagcc gggaaaatg aaaagtatc 
      tacaatatt gtggtccac aattgcgaa aatctggtc 
      aaagtgttc caaccttta gcggagacg agaacagtc 
      atagacatt aaagacatt ctaatgcgg tttactgct 
      gatgttatc ggttctacg tcctttggt attgactgc 
      aacagtctg gatcatccc gacactgaa ttttccagg 
      atggtcaac aggatttcc aatcactcg ggatggaaa 
      ctactaaga gttgcacta gaggagggg ctccagaac 
      cccggaaat atcgaaaaa attgcatac aatgataag 
      gttgtggaa gactttttc acaaatttg gtcaaagaa 
      acgatggag tatcgggac aagaacaac atcatcaga 
      aacgacttt ttgcacatg ttgatgcaa ctaagagaa 
      tcggccgga atgtcactc aaagaaata gtttcccag 
      tcatttctc ttctttatt gctggtttc aaaacctcg 
      gccttgacc atgtgctac tgcattcac gaactggcc 
      cacagtcag gaccttcag gacaaggtg agggaagaa 
      attcacaaa aacttaggg agagatgtt agtaagtac 
      gcctacgag gaactcatc gctctgcca actttggat 
      aaagttgtg aaagaaacc atgcggaaa tatcctcct 
      cttccgatg ttgaaccgc atctgtgtc aagtcatat 
      caagtgccc ggaactgac gtcgtgatt gacaaagac 
      actccggtg attatccca gttttggga ctccaaaga 
      gatccggag ttctatccc gaaccgtta aaatttgac 
      ccggaacgg tttagtaat gacaataac atcgttccg 
      tacacttat ctaccgttt ggtgatggg ccccggaac 
      tgcataggt ttgcggttt ggaatggtt aagacgaaa 
      ctggctgtc gccgcgtta ttaaataat ttcagattt 
      ttggcaagt tcgaagaca cgaaggaat cttgccatt 
      gatccaagt actacctca attttgttc aatgtttcc 
      gagggtatt tatacgaag ataattaaa gtttaa
    mRNA sequence
    • >TC014346 RA
      ctcgtagaa acagcagtt agtctacaa cctccaaac 
      gtgcacaat gtttctctt tgatttaca agtgtcggt 
      cattcaact gctttcact ttttggtgt ctcaattct 
      ctccgggta ctacttcta ttatcggta ctgctacac 
      ctattggaa gaagaaagg cgttccaac cagcaaacc 
      tcggtttcc atttgggga tctgtcatc gtcagcgtg 
      gggtaaaca aagtgttta cagtcgact ggagacgct 
      ctaccacca gttcaaagc caaaggata taaacatgc 
      cgggattta ttttttcaa cgggcccat atattttcc 
      catagaccc agatctggt caaacgagt gctagtgac 
      cgatttcga gtatttcgt agatagagg aatgtacgg 
      aaacgggga tgagttacc tctcagttg ccacatttt 
      ctcaatgaa gggggaaga gtggaaaaa tattagaac 
      gaaaatgtc gcctagttt cacagccgg gaaaatgaa 
      aagtatcta caatattgt ggtccacaa ttgcgaaaa 
      tctggtcaa agtgttcca acctttagc ggagacgag 
      aacagtcat agacattaa agacattct aatgcggtt 
      tactgctga tgttatcgg ttctacgtc ctttggtat 
      tgactgcaa cagtctgga tcatcccga cactgaatt 
      ttccaggat ggtcaacag gatttccaa tcactcggg 
      atggaaact actaagagt tgcactaga ggaggggct 
      ccagaaccc cggaaatat cgaaaaaat tgcatacaa 
      tgataaggt tgtggaaga ctttttcac aaatttggt 
      caaagaaac gatggagta tcgggacaa gaacaacat 
      catcagaaa cgacttttt gcacatgtt gatgcaact 
      aagagaatc ggccggaat gtcactcaa agaaatagt 
      ttcccagtc atttctctt ctttattgc tggtttcaa 
      aacctcggc cttgaccat gtgctactg cattcacga 
      actggccca cagtcagga ccttcagga caaggtgag 
      ggaagaaat tcacaaaaa cttagggag agatgttag 
      taagtacgc ctacgagga actcatcgc tctgccaac 
      tttggataa agttgtgaa agaaaccat gcggaaata 
      tcctcctct tccgatgtt gaaccgcat ctgtgtcaa 
      gtcatatca agtgcccgg aactgacgt cgtgattga 
      caaagacac tccggtgat tatcccagt tttgggact 
      ccaaagaga tccggagtt ctatcccga accgttaaa 
      atttgaccc ggaacggtt tagtaatga caataacat 
      cgttccgta cacttatct accgtttgg tgatgggcc 
      ccggaactg cataggttt gcggtttgg aatggttaa 
      gacgaaact ggctgtcgc cgcgttatt aaataattt 
      cagattttt ggcaagttc gaagacacg aaggaatct 
      tgccattga tccaagtac tacctcaat tttgttcaa 
      tgtttccga gggtattta tacgaagat aattaaagt 
      ttaagtctg tgaattgtg attgtttat gttattaaa 
      aagtttttc tttagatgt tttgtttta ttgctccac 
      tcgggtcag tgggatggg tttattttt gcgttatgt 
      tgtttcact caaagtaaa caattcggt taaatatag 
      ctcgccgtt tattgggtt ttaatggac atgtgcaga 
      cttttaaaa tttgtgttt atacgaata aattgactt 
      aagtagt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY