Status
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Gene information
General information
TC006460 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: 9948551..9962505
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
    TC006460
    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_01051

    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 not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    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): more than 80%
    larva dorsal not closed - Penetrance (percentage of animals/eggs on slide): less than 30%

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

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

    affected eggs/embryos/larvae - 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: 30.0% (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: 3 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006460 RA
      MPNKLSQYE DIPFSHRPP HYLHELPIE DEERLGKLF 
      KQLDKDGNG KIDIHDLSE ALKEHGVHH HYAEKFFQN 
      SRSKSGDLS LADFIYYVR EHEKNLRLH FSHIDRNKD 
      GRIDLDELI KAFSDLGIP LDTMEAKKL LQRMDQDGS 
      LNISYDEWR DFLLLAPNS QDIHQLISY WRHSTCLIY 
      LVIVEKNCD RKMYEQELA PASIPDVLE DCIYLFREL 
      IKYLDIGED MNVPDDFTQ SEMQTGMWW RHLAAGGIA 
      GAVSRTCTA PLDRLKVFL QVQPTKQRI GDCFNYMLK 
      EGGVTGLWR GNGINVVKI APESAIKFA AYEQIKRLI 
      KGDSKTGLS IYERFCAGA LAGGISQTA IYPLEVMKT 
      RLALRKTGQ YKSIMDAAF KIYHLEGIG SFYRGYIPN 
      ILGIIPYAG IDLAVYETL KKKYLKTHS NLEQPSFWM 
      LLACGSVSS TLGQMCSYP LALVRTRLQ AQVAHPSMD 
      PSAITMTGV FKTILEKEG VLGLYRGIT PNFIKVMPA 
      VSISYVVYE YSSRLLGVN MT
    CDS sequence
    • >TC006460 RA
      atgccgaat aaactgtcg cagtacgaa gacattccc 
      ttttctcat cgtcctcca cactacctg catgagcta 
      ccaatcgaa gatgaggaa cgtctcggg aaactcttc 
      aagcaactg gacaaagac ggaaacggc aagattgac 
      atccacgac ttgagcgaa gctctcaaa gaacacggt 
      gtccaccat cactacgct gagaaattt ttccaaaat 
      tctcgatcg aaaagtgga gacttgtcg ctggccgac 
      ttcatctac tacgttcga gaacatgag aaaaatctc 
      cgactccac ttttcccac attgatagg aacaaagat 
      ggtaggatt gatctggac gagctcatc aaagcgttc 
      agcgatctg gggattccc ctggacacc atggaagcg 
      aagaaactc ttacagagg atggatcag gatggcagt 
      ctcaatatt agctatgat gagtggagg gactttctc 
      ctcctcgcc cccaacagc caagatatt caccagctg 
      atcagctat tggagacat tcaacgtgt ttaatttat 
      ttagtaatt gttgaaaaa aattgtgat agaaaaatg 
      tacgaacag gagttagcg ccggcgtcc ataccggac 
      gtcctggag gactgcatt tatttattt agggaattg 
      atcaagtac ctggacatc ggggaggat atgaacgtc 
      cctgatgat ttcacacag agtgaaatg cagacaggg 
      atgtggtgg aggcattta gctgcggga ggaatcgcc 
      ggagcggtt tccaggact tgtaccgcc cccttggac 
      aggctcaag gtgttcctt caggtccaa ccgacgaag 
      cagcgaatc ggcgactgt ttcaattac atgctgaaa 
      gagggtggt gtcacaggt ctatggcgg ggcaacggc 
      atcaacgtg gtgaaaatc gcccccgag tcggcgatc 
      aaatttgca gcctacgaa cagatcaaa cgactgatc 
      aaaggcgat tccaagaca ggactcagc atttacgag 
      cggttttgt gcgggggct ttagctggg ggtattagt 
      cagacggcg atttatccg ctggaggtt atgaagacg 
      aggttggcg ttgcgtaaa acgggacag tataagagt 
      atcatggat gctgctttt aaaatctat catctggaa 
      ggcatcggt agtttttat agaggttac attccgaat 
      attcttggt attataccg tatgccggt atcgatttg 
      gctgtgtac gaaacgttg aaaaagaag tacttgaag 
      actcattcc aatttggaa cagccgagc ttttggatg 
      ttgctggcc tgtggcagc gtctcgagt actttaggg 
      caaatgtgt tcttacccc ttggcgctg gtgcggacg 
      aggttgcaa gcacaagtg gcgcatccg tcgatggac 
      ccctctgcc atcacaatg actggggtg ttcaaaacg 
      atattagag aaggaaggt gtgttgggt ttgtaccgc 
      ggcataact ccgaacttt atcaaagta atgccggca 
      gtaagcata agttacgtc gtttacgag tactcgagt 
      cgcttactc ggagtaaat atgacgtga
    mRNA sequence
    • >TC006460 RA
      tgtcaaaaa tctcaaaca gctgtcaaa tgccgtttt 
      cgcgaagtc gcattgcgg cattgcatt agttgcttt 
      tccaccaaa aatcgtcat aaattagct cttggtgtt 
      gcatcggga gtggttttg atgtgaaaa tgccgaata 
      aactgtcgc agtacgaag acattccct tttctcatc 
      gtcctccac actacctgc atgagctac caatcgaag 
      atgaggaac gtctcggga aactcttca agcaactgg 
      acaaagacg gaaacggca agattgaca tccacgact 
      tgagcgaag ctctcaaag aacacggtg tccaccatc 
      actacgctg agaaatttt tccaaaatt ctcgatcga 
      aaagtggag acttgtcgc tggccgact tcatctact 
      acgttcgag aacatgaga aaaatctcc gactccact 
      tttcccaca ttgatagga acaaagatg gtaggattg 
      atctggacg agctcatca aagcgttca gcgatctgg 
      ggattcccc tggacacca tggaagcga agaaactct 
      tacagagga tggatcagg atggcagtc tcaatatta 
      gctatgatg agtggaggg actttctcc tcctcgccc 
      ccaacagcc aagatattc accagctga tcagctatt 
      ggagacatt caacgtgtt taatttatt tagtaattg 
      ttgaaaaaa attgtgata gaaaaatgt acgaacagg 
      agttagcgc cggcgtcca taccggacg tcctggagg 
      actgcattt atttattta gggaattga tcaagtacc 
      tggacatcg gggaggata tgaacgtcc ctgatgatt 
      tcacacaga gtgaaatgc agacaggga tgtggtgga 
      ggcatttag ctgcgggag gaatcgccg gagcggttt 
      ccaggactt gtaccgccc ccttggaca ggctcaagg 
      tgttccttc aggtccaac cgacgaagc agcgaatcg 
      gcgactgtt tcaattaca tgctgaaag agggtggtg 
      tcacaggtc tatggcggg gcaacggca tcaacgtgg 
      tgaaaatcg cccccgagt cggcgatca aatttgcag 
      cctacgaac agatcaaac gactgatca aaggcgatt 
      ccaagacag gactcagca tttacgagc ggttttgtg 
      cgggggctt tagctgggg gtattagtc agacggcga 
      tttatccgc tggaggtta tgaagacga ggttggcgt 
      tgcgtaaaa cgggacagt ataagagta tcatggatg 
      ctgctttta aaatctatc atctggaag gcatcggta 
      gtttttata gaggttaca ttccgaata ttcttggta 
      ttataccgt atgccggta tcgatttgg ctgtgtacg 
      aaacgttga aaaagaagt acttgaaga ctcattcca 
      atttggaac agccgagct tttggatgt tgctggcct 
      gtggcagcg tctcgagta ctttagggc aaatgtgtt 
      cttacccct tggcgctgg tgcggacga ggttgcaag 
      cacaagtgg cgcatccgt cgatggacc cctctgcca 
      tcacaatga ctggggtgt tcaaaacga tattagaga 
      aggaaggtg tgttgggtt tgtaccgcg gcataactc 
      cgaacttta tcaaagtaa tgccggcag taagcataa 
      gttacgtcg tttacgagt actcgagtc gcttactcg 
      gagtaaata tgacgtgat gtaggagca ttttaggaa 
      caaattatt tattattaa ttataaaat tccctctca 
      ttttgtccg ggacacggg caaacgata tttctggca 
      actttgatt gcttggtct atttatttg tacagatta 
      ttactgtaa gaatacttg aataggctt taacaaact 
      aaacttgtt gaatgtcga ttgttaata atttacgaa 
      atctttttt caatctctt gacgctcat gtggcttct 
      ttgacacat ttatgtaag ttttaaagt ctaaacgtt 
      tctcgatgt tgttgattc taccaaaga aggcatgtt 
      ctgttacta aatgacaat tttaatatt gatactgtg 
      tattttcca tgattgaga ttactttag gaagaggac 
      gattgtgat gtacttaat attttaata aactgg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY