Status
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Gene information
General information
TC001477 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.

NW_015450689.1: 4057..10159
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
    TC001477
    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
    {{ goGene }}
    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
    If you paste here the relevant section of the reference it is for us a great help to review your annotation. The quotation may be also be displayed to the users of iBeetle-Base.
    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_03196

    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


    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): 50% - 80%

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

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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%
    head capsule decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

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

    Comment: In few cases the head is missing completely.
    thorax not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    Comment: In few cases the head is missing completely.
    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: % (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
    • >TC001477 RA
      MGESHENLL RVVRHCQES LDKYTENRN DGKLLHYIE 
      KLYRLPIKV VHLEQTGVG RTVNGLRKL GGDVGDSAK 
      SLVAKWKEM VVGEQEEEE EEDDDEDED DEDEDGYQS 
      GEEPSNDSD DKDGHEEKS TPSSQHKRD NDRTDDRER 
      VKKSKSDGS ETSRRHRHN GHEKKAHKR KSEESSSEE 
      ETARKRPKK EEERQKSSK RDEERRHKA AKKAKAAAP 
      DFEEKKDSG RHKSKKDDR KSKDKKIKD EKREKSDEK 
      KTKSSKKLN GNLVNGIDS GSGASFAEA LGMCEPSSS 
      KNSAKKKVE KVEKVEKKK EKSTDQTVP KLLKEPTLD 
      PIDLNISSL LPPITPNYR PLGNLLPSD SHHKKFMSE 
      SEALTSIIT SKNQRTKVY SGNKMGCGK VASLFDLCI 
      RVLQDNIDA LEYTGGVPY NVLKPILEK ANPNQLYLM 
      EHHNPYLIE DTDELWQLH CQKDFRNKK REELETWRE 
      MYLRCLDER DAKLKALTA NIKQAQDKS LPVRMTKLA 
      YVDAVAKPP RNIARKQAK NGTAFDVRK TASAKLSSL 
      ATAGEAGKV SVPNPGSRA VERPSAHAK PKKAPLMLK 
      SISSFKNRF KR
    CDS sequence
    • >TC001477 RA
      atgggcgaa tctcacgaa aatctgctc cgtgtcgtg 
      agacactgt caggagtcg ctcgacaaa tacacggag 
      aaccgaaac gacggcaag ctgctgcac tacatcgag 
      aagttgtac cggctgccc atcaaggtg gtgcatttg 
      gagcagacg ggggtcggg cgcacggtg aacggcttg 
      cgtaagctg gggggcgat gtcggcgac tccgccaag 
      tctctggtg gcaaagtgg aaggaaatg gtggtgggg 
      gagcaggag gaggaggag gaggaggac gatgatgag 
      gatgaggac gacgaggat gaagacggg taccaaagc 
      ggggaagaa ccgtcgaat gacagcgac gataaagac 
      ggccatgag gaaaaatca acgccttct agtcaacac 
      aaacgtgat aatgacagg actgacgat agggaaaga 
      gtgaagaag agcaagtcg gacgggtcc gaaacgtcg 
      cggagacat cgccacaac gggcacgag aaaaaggca 
      cacaaacgc aaaagcgag gagtcgagt agtgaggaa 
      gaaacggcg cgaaagcgc cccaagaag gaggaagag 
      cgccagaaa agcagcaaa cgtgacgaa gaacgaaga 
      cacaaggcg gcgaagaaa gccaaagct gcggccccc 
      gattttgaa gagaagaaa gacagtggt agacataaa 
      tcaaagaag gacgacagg aagagcaag gataagaag 
      attaaggat gagaagagg gagaaaagt gatgagaag 
      aagaccaaa agttcgaag aagttgaat gggaatttg 
      gttaatggg attgattcg ggatcgggg gctagtttt 
      gcggaggct ttgggcatg tgtgagcct tcgtcgagt 
      aagaatagt gcgaagaag aaagtggag aaggtggag 
      aaagtggag aagaagaag gaaaagtca acggaccag 
      acggtcccc aaactcctt aaagaaccg accctggac 
      cccatagat ctcaacatt tcaagccta ctgcctcca 
      atcaccccc aactaccgc cccctcggc aacttgctc 
      ccttcggac agccaccac aaaaaattc atgtccgaa 
      tcggaggcg ctcacaagc attatcacc tcgaaaaac 
      caaaggacg aaagtctat tctggcaat aaaatgggc 
      tgcgggaaa gtggcctcg ctgttcgat ctgtgtatt 
      cgagtcctt caggataat atcgatgct ctggagtac 
      actggggga gttccttac aacgtcctt aagccgatt 
      ttggaaaaa gccaacccg aatcaactt tatttaatg 
      gaacaccat aacccgtat cttatcgaa gacacagac 
      gagttgtgg cagttgcat tgtcagaag gactttaga 
      aataaaaag agagaggag ttggagacg tggcgcgaa 
      atgtacctg agatgtttg gatgagaga gacgccaaa 
      cttaaagca ttgacagcg aatataaaa caagcgcaa 
      gataagtcg cttccggtc aggatgacc aagctggca 
      tatgtggat gcggtggcc aaaccccct agaaatata 
      gctcgcaaa caagcaaaa aatgggacg gctttcgac 
      gtccgaaaa accgcttca gcaaaactg agttctctg 
      gcaacggca ggcgaggcc ggaaaagtg tcagttcca 
      aaccccgga agtcgagcc gttgaaaga ccttcggcc 
      cacgccaag cccaagaaa gcccccctt atgttaaaa 
      agcataagt tcgttcaaa aacaggttc aagagataa
    mRNA sequence
    • >TC001477 RA
      ttaaagtga cgttcgtgt ccgtgacag ctgactaaa 
      attggagtg tttgtgttg tccgtaaaa ataaaaagc 
      ccgttatgg ccgtgaatt gagtgcaat tctgggcga 
      tttcctgaa aaaatcgtt cgtttccgt tcattttgc 
      gtaataaat gccgagcgg gaccgtggt tgcagtaac 
      aggtaacca tctgtttgt agcctcaag ttgctcaaa 
      atgggcgaa tctcacgaa aatctgctc cgtgtcgtg 
      agacactgt caggagtcg ctcgacaaa tacacggag 
      aaccgaaac gacggcaag ctgctgcac tacatcgag 
      aagttgtac cggctgccc atcaaggtg gtgcatttg 
      gagcagacg ggggtcggg cgcacggtg aacggcttg 
      cgtaagctg gggggcgat gtcggcgac tccgccaag 
      tctctggtg gcaaagtgg aaggaaatg gtggtgggg 
      gagcaggag gaggaggag gaggaggac gatgatgag 
      gatgaggac gacgaggat gaagacggg taccaaagc 
      ggggaagaa ccgtcgaat gacagcgac gataaagac 
      ggccatgag gaaaaatca acgccttct agtcaacac 
      aaacgtgat aatgacagg actgacgat agggaaaga 
      gtgaagaag agcaagtcg gacgggtcc gaaacgtcg 
      cggagacat cgccacaac gggcacgag aaaaaggca 
      cacaaacgc aaaagcgag gagtcgagt agtgaggaa 
      gaaacggcg cgaaagcgc cccaagaag gaggaagag 
      cgccagaaa agcagcaaa cgtgacgaa gaacgaaga 
      cacaaggcg gcgaagaaa gccaaagct gcggccccc 
      gattttgaa gagaagaaa gacagtggt agacataaa 
      tcaaagaag gacgacagg aagagcaag gataagaag 
      attaaggat gagaagagg gagaaaagt gatgagaag 
      aagaccaaa agttcgaag aagttgaat gggaatttg 
      gttaatggg attgattcg ggatcgggg gctagtttt 
      gcggaggct ttgggcatg tgtgagcct tcgtcgagt 
      aagaatagt gcgaagaag aaagtggag aaggtggag 
      aaagtggag aagaagaag gaaaagtca acggaccag 
      acggtcccc aaactcctt aaagaaccg accctggac 
      cccatagat ctcaacatt tcaagccta ctgcctcca 
      atcaccccc aactaccgc cccctcggc aacttgctc 
      ccttcggac agccaccac aaaaaattc atgtccgaa 
      tcggaggcg ctcacaagc attatcacc tcgaaaaac 
      caaaggacg aaagtctat tctggcaat aaaatgggc 
      tgcgggaaa gtggcctcg ctgttcgat ctgtgtatt 
      cgagtcctt caggataat atcgatgct ctggagtac 
      actggggga gttccttac aacgtcctt aagccgatt 
      ttggaaaaa gccaacccg aatcaactt tatttaatg 
      gaacaccat aacccgtat cttatcgaa gacacagac 
      gagttgtgg cagttgcat tgtcagaag gactttaga 
      aataaaaag agagaggag ttggagacg tggcgcgaa 
      atgtacctg agatgtttg gatgagaga gacgccaaa 
      cttaaagca ttgacagcg aatataaaa caagcgcaa 
      gataagtcg cttccggtc aggatgacc aagctggca 
      tatgtggat gcggtggcc aaaccccct agaaatata 
      gctcgcaaa caagcaaaa aatgggacg gctttcgac 
      gtccgaaaa accgcttca gcaaaactg agttctctg 
      gcaacggca ggcgaggcc ggaaaagtg tcagttcca 
      aaccccgga agtcgagcc gttgaaaga ccttcggcc 
      cacgccaag cccaagaaa gcccccctt atgttaaaa 
      agcataagt tcgttcaaa aacaggttc aagagataa 
      ccgaaagac tgtgttcga ttcagattc gatatattt 
      tggctgtaa gttttagat tattttatt gatcaagtg 
      ttttaggta gtgattggt tttacttca tcgtggttt 
      aagtttttg acagttttt gtcaggtca ttatgtgat 
      tgtaattat ttatattgt atcatcttt ttccatttt 
      acttcattg tgtatattt catttcgtc gaggtttta 
      tttttatta ttattggtg gcaaatgta attatgtaa 
      atcacggtt ttaaaatag ttgaaatat ttttataga 
      taaggcagg cattaagta ggtgattaa ataaaaatc 
      aggaacgga ttttggagc acaatgttc tttttacaa 
      agaacaggc aaataaaca attccagta aga
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY