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Gene information
General information
TC005664 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: 9982651..9985259
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
    TC005664
    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_03996

    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: 10.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    Fertility
    ovary without detectable defects - Number of animals showing the phenotype: 5
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 50 larval musculature irregular - 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): 30% - 50%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    larva cuticle dorsal not closed - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    head capsule size decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    head appendages orientation irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    head appendages shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    head not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    thorax segment number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    legs podomer shortened - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    thorax not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen not present - 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%
    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: 60.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 90.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 6 (11 dpi)
    Days post injection


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    larva lethality late (L7) - Number of animals showing the phenotype: 3 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005664 RA
      MLVYERGDP DKADLFGNT ALHLAAAQG HKHIVTFLV 
      NFGANIYST DIDGRTAQE LAGMNNRDD ILRFLDGVH 
      AKLEAGDKK KAKALKEKA KKESEKRIK EFNKRQVKK 
      EQVQEKLEK RMNKGHHRP SMIETLKTR IKSGSMSNL 
      SNLGPAPPR FSTIVGNGT VSGMRNLGS VQKRVLASR 
      TTRPGFDDD FKISEIEDG KRSVRSLTG YRRDSEVLY 
      TGTIDGRRG RLESVFNEA EYIESSPPP PPSSNGLTR 
      SISQPDFMH ELETNGDTK LQQEPASIF VRPGIGSIA 
      FRKSITNTF QGFYSSEGP NEESSIGSG ESYGPRTNT 
      LSIEDELSD PESSDDDNP NAPLERFLT AWGLGEYLP 
      RFEEQKIDL ETLMILTEN DLQSLNLPL GPYRKLVTA 
      VSERKAALE NPGEVTDSM L
    CDS sequence
    • >TC005664 RA
      atgttggta tacgagagg ggagacccg gacaaagcc 
      gacctcttc ggcaacacg gccctgcac ttggccgcg 
      gcgcagggc cacaaacac atcgtcaca ttcctagtc 
      aatttcgga gccaacatt tactcgact gatatcgac 
      ggccgcacc gcccaagaa ctcgccgga atgaacaac 
      cgcgacgac atcctgcgg ttcttggac ggcgtccac 
      gccaaactg gaggccggc gacaaaaag aaagccaaa 
      gcactcaaa gaaaaagca aagaaagag tcagaaaaa 
      cgcatcaaa gaattcaac aaacgccaa gtcaaaaaa 
      gagcaagtt caagagaag ctggagaaa cgtatgaac 
      aaaggtcac cacaggccg tcgatgata gagacgctc 
      aaaaccaga attaaaagt gggtccatg tcgaacttg 
      tcgaatctg gggccggcc cctccgagg ttcagcacc 
      atcgtgggc aacgggacc gtttccggg atgcggaat 
      ttggggtcg gtgcagaag cgggtgctc gccagccga 
      acaacgcgg cctggcttc gacgacgac ttcaagatt 
      agtgaaatt gaagacggc aaacgctca gtcagatca 
      ctaacgggg tatcggcga gactctgag gtactttac 
      acggggacc atcgatggc aggagaggc cgtctggaa 
      tcggtcttc aacgaagct gagtacata gagtcgtct 
      ccgccgcca ccaccgtcc agcaacggc ctcacaagg 
      tccatctcc cagcctgac ttcatgcac gaattggaa 
      acaaacggc gacactaaa ctccaacaa gaaccagcg 
      agtattttc gtgcgccca ggaattgga agcatagcg 
      ttccgaaag agcataacc aacacattc caaggcttc 
      tactccagc gaaggcccc aacgaggag agttcaatc 
      gggtcaggg gaaagctac ggccccaga accaacact 
      ctatcaatc gaagacgag ttatcagac cccgagtcc 
      agcgacgac gataacccg aacgctccc ctggaacgc 
      ttcttgacc gcctggggg ctaggagag taccttccc 
      cgcttcgag gagcagaaa atcgacctg gaaacgctg 
      atgatactg acagaaaac gatctccaa agcctgaac 
      ttgccccta gggccgtac aggaaactt gtgaccgct 
      gtcagcgaa cgcaaagcc gcgctggag aatccgggc 
      gaagtcaca gacagcatg ttgtaa
    mRNA sequence
    • >TC005664 RA
      aaaaaatgt aaatccgct gttgctatt tttattaaa 
      attttgaaa tcgtagtta ggccaatag ttttttatg 
      ttggtatac gagagggga gacccggac aaagccgac 
      ctcttcggc aacacggcc ctgcacttg gccgcggcg 
      cagggccac aaacacatc gtcacattc ctagtcaat 
      ttcggagcc aacatttac tcgactgat atcgacggc 
      cgcaccgcc caagaactc gccggaatg aacaaccgc 
      gacgacatc ctgcggttc ttggacggc gtccacgcc 
      aaactggag gccggcgac aaaaagaaa gccaaagca 
      ctcaaagaa aaagcaaag aaagagtca gaaaaacgc 
      atcaaagaa ttcaacaaa cgccaagtc aaaaaagag 
      caagttcaa gagaagctg gagaaacgt atgaacaaa 
      ggtcaccac aggccgtcg atgatagag acgctcaaa 
      accagaatt aaaagtggg tccatgtcg aacttgtcg 
      aatctgggg ccggcccct ccgaggttc agcaccatc 
      gtgggcaac gggaccgtt tccgggatg cggaatttg 
      gggtcggtg cagaagcgg gtgctcgcc agccgaaca 
      acgcggcct ggcttcgac gacgacttc aagattagt 
      gaaattgaa gacggcaaa cgctcagtc agatcacta 
      acggggtat cggcgagac tctgaggta ctttacacg 
      gggaccatc gatggcagg agaggccgt ctggaatcg 
      gtcttcaac gaagctgag tacatagag tcgtctccg 
      ccgccacca ccgtccagc aacggcctc acaaggtcc 
      atctcccag cctgacttc atgcacgaa ttggaaaca 
      aacggcgac actaaactc caacaagaa ccagcgagt 
      attttcgtg cgcccagga attggaagc atagcgttc 
      cgaaagagc ataaccaac acattccaa ggcttctac 
      tccagcgaa ggccccaac gaggagagt tcaatcggg 
      tcaggggaa agctacggc cccagaacc aacactcta 
      tcaatcgaa gacgagtta tcagacccc gagtccagc 
      gacgacgat aacccgaac gctcccctg gaacgcttc 
      ttgaccgcc tgggggcta ggagagtac cttccccgc 
      ttcgaggag cagaaaatc gacctggaa acgctgatg 
      atactgaca gaaaacgat ctccaaagc ctgaacttg 
      cccctaggg ccgtacagg aaacttgtg accgctgtc 
      agcgaacgc aaagccgcg ctggagaat ccgggcgaa 
      gtcacagac agcatgttg taaatatgg agtcaaaat 
      gtgttattt attcattgt cgtggacat gataacggt 
      attgcttgt attttatgg gcacttttt gtacagatg 
      tgtgccagg cataatatt tacaaattc gtatttaaa 
      tttattata aataaatgt gtgttatgc aa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY