Status
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Gene information
General information
TC003478 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_007418.3: 5711770..5715294
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
    TC003478
    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_06928

    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: 30.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


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


    adult lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 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): less than 30%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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
    • >TC003478 RA
      MWTDICTYL VILAVMLMS IYFKNYIRS VYLAFQLSG 
      PPAVPLIGN VLLMKNDRK LEEIAEKMS EMYSPFMRC 
      WLSIFPVFF IYEPKALQL IMGTNRYTS KNIFYNCLH 
      NVVGDGLIT SSGEIWKQH RKLIQPYFH ISVLKVYFD 
      IFYKWSMAM VQDLENETE VNITKYANK FVFDVQEES 
      ILGISGKRP ESSPYRGGQ FLMLHRITR PWLLFNTIF 
      KRTDFSKVE ENQKNILQQ YTKSILDGK KQNSHGTAM 
      NNLMEMMME ISNMNPEFT DDDIVNETC TFMLAGQDS 
      VGAALSFAL YSLAAHQDI QEKVVQELN GIFKDGNQA 
      ATFEDVAEM KYLEQCIKE TLRLYPSVP MITRKITED 
      VPLGKYTLP TGTNIVISP FVTHRLPHV FPDPLKFDP 
      DRFSPENKA KIHPYGFIP FSAGPRNCI GYKFAIIEL 
      KTVLSQILR KYHVSLVPG REKLILSYR MTLKAKKGI 
      WLRLKKRSV
    CDS sequence
    • >TC003478 RA
      atgtggact gatatttgc acatatttg gtcattttg 
      gcagttatg ctgatgtcc atttatttt aagaattat 
      atcaggagc gtatatttg gcatttcaa ctatctgga 
      cccccagca gtaccactt ataggaaac gtacttctc 
      atgaaaaac gaccgaaaa ctagaagaa atagctgaa 
      aaaatgtct gaaatgtat agtccattt atgcgttgt 
      tggttatca atatttcca gtctttttt atttatgaa 
      ccaaaagcc ttacaactt attatgggt actaaccga 
      tataccagt aaaaatata ttttataac tgcctacat 
      aacgtggtt ggtgatggt cttataact tcttctggt 
      gaaatatgg aaacaacat cgaaaatta attcagccg 
      tactttcac attagcgtg ttaaaagtg tattttgac 
      atattttac aaatggtcg atggctatg gtccaggat 
      ttggaaaat gagaccgaa gttaatata accaagtac 
      gcaaataaa tttgttttt gatgttcag gaagagtca 
      atattgggc atttctggg aaaagacca gagtcgtct 
      ccttatagg ggaggtcaa tttctgatg ttgcacaga 
      attacaaga ccgtggctg cttttcaac acaattttc 
      aaacgaact gacttttca aaagtggaa gaaaatcaa 
      aaaaatatc ttgcagcag tatacaaag tcaatttta 
      gacggcaag aaacaaaat tcgcacggt accgctatg 
      aataattta atggagatg atgatggaa atatcgaac 
      atgaatccg gaatttaca gacgatgat attgtgaac 
      gaaacctgc actttcatg ttggcaggc caggattct 
      gtaggagct gcgctatca tttgcattg tattctcta 
      gccgcacac caagacatt caagaaaaa gttgtgcaa 
      gagttaaat ggcattttc aaagatggt aatcaagca 
      gcaacgttt gaagatgtg gccgaaatg aagtacttg 
      gagcaatgt attaaagaa actttaagg ctgtaccca 
      agcgtaccg atgatcacc agaaaaata accgaagac 
      gtaccctta ggaaaatac acactaccc acaggaaca 
      aatatcgtg atttccccc tttgtcacc catagacta 
      ccacatgtc tttcctgat ccgctaaag tttgatcct 
      gatcgcttt tcacccgaa aataaagca aaaattcat 
      ccatatgga ttcattcct tttagcgcc ggacctcga 
      aattgtatc ggttacaag tttgcaata atagaattg 
      aaaacggta ctatcccaa atattgaga aaatatcac 
      gtttcttta gtacctgga cgagaaaaa ttaattctg 
      tcatatagg atgacctta aaagccaaa aaaggaatt 
      tggctaagg ctgaagaag aggagtgtg tag
    mRNA sequence
    • >TC003478 RA
      attggcctg caaaccagc tccagcttt ataagcttc 
      agcatcaat tcgtacaac aatttttaa aattgcttc 
      aaatagctg gagctctcg tgaagtttt caaaaaagt 
      gtgtgccac tttatcatt atcccgagt aaaaaatgt 
      ggactgata tttgcacat atttggtca ttttggcag 
      ttatgctga tgtccattt attttaaga attatatca 
      ggagcgtat atttggcat ttcaactat ctggacccc 
      cagcagtac cacttatag gaaacgtac ttctcatga 
      aaaacgacc gaaaactag aagaaatag ctgaaaaaa 
      tgtctgaaa tgtatagtc catttatgc gttgttggt 
      tatcaatat ttccagtct tttttattt atgaaccaa 
      aagccttac aacttatta tgggtacta accgatata 
      ccagtaaaa atatatttt ataactgcc tacataacg 
      tggttggtg atggtctta taacttctt ctggtgaaa 
      tatggaaac aacatcgaa aattaattc agccgtact 
      ttcacatta gcgtgttaa aagtgtatt ttgacatat 
      tttacaaat ggtcgatgg ctatggtcc aggatttgg 
      aaaatgaga ccgaagtta atataacca agtacgcaa 
      ataaatttg tttttgatg ttcaggaag agtcaatat 
      tgggcattt ctgggaaaa gaccagagt cgtctcctt 
      ataggggag gtcaatttc tgatgttgc acagaatta 
      caagaccgt ggctgcttt tcaacacaa ttttcaaac 
      gaactgact tttcaaaag tggaagaaa atcaaaaaa 
      atatcttgc agcagtata caaagtcaa ttttagacg 
      gcaagaaac aaaattcgc acggtaccg ctatgaata 
      atttaatgg agatgatga tggaaatat cgaacatga 
      atccggaat ttacagacg atgatattg tgaacgaaa 
      cctgcactt tcatgttgg caggccagg attctgtag 
      gagctgcgc tatcatttg cattgtatt ctctagccg 
      cacaccaag acattcaag aaaaagttg tgcaagagt 
      taaatggca ttttcaaag atggtaatc aagcagcaa 
      cgtttgaag atgtggccg aaatgaagt acttggagc 
      aatgtatta aagaaactt taaggctgt acccaagcg 
      taccgatga tcaccagaa aaataaccg aagacgtac 
      ccttaggaa aatacacac tacccacag gaacaaata 
      tcgtgattt ccccctttg tcacccata gactaccac 
      atgtctttc ctgatccgc taaagtttg atcctgatc 
      gcttttcac ccgaaaata aagcaaaaa ttcatccat 
      atggattca ttcctttta gcgccggac ctcgaaatt 
      gtatcggtt acaagtttg caataatag aattgaaaa 
      cggtactat cccaaatat tgagaaaat atcacgttt 
      ctttagtac ctggacgag aaaaattaa ttctgtcat 
      ataggatga ccttaaaag ccaaaaaag gaatttggc 
      taaggctga agaagagga gtgtgtaga attaagcaa 
      tataatcac caaaaaata ccataagcg ggatggtat 
      ttccatcca tagagaaat taaaaccgt ccattaaca 
      tgcggaact ttaacatca ttggaattc aaaataaaa 
      aatatgaga tcaaccgtt cattttttc agatgagac 
      actcgctta tttatatct tataacata ggtacctaa 
      tttgtttta cttgtacgt tttactttt gttaattta 
      gtcatgaca tgttttgta agtttgagt aaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY