Status
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Gene information
General information
TC002880 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: 7546996..7549017
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
    TC002880
    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_06954

    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: 60.0% (includes death as pupa, adult)

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


    adult lethality - Number of animals showing the phenotype: 3 (9 dpi)
    Days post injection


    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection


    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
    • >TC002880 RA
      MSLSQKHYG KVLVPWFNT AEWKAVYNL IYSETGQDW 
      PKALSILKI WKLRTPLLS SGVEGTLIV LEALLVNTN 
      LLSSYETSH IFCTSLVRF LNLCAANSA KQGTFYKTA 
      IKNDLPKWL IGLRHDIAH SHNVPPLSM LELGLKFCL 
      GWLKGKYWD VQCDNMADF VVEKATGNG IEDAFYILE 
      NLGENGVHE NIKLMKKIN NFVGEAQKQ TSCKKMQEY 
      VLNRLRKEI TTNKEASVG ALCKLLIDD LTILSIQIE 
      IDESGVKRI PPDYLNKWN KLFGGMYEA QIMPDFIYK 
      LFNFVCDDR NDLLHREVA SLWIKEIFL ALINQQNND 
      KNIAVLSFS SHNNSLKDK HLVTEVLER LTPFTPNFA 
      REVLIYNNA PVELIEDSL CLMSAFDTH SATTNGKIF 
      TVDDLDLIE ETFNDVRDV PTQSKSRWT LIEDTSLFL 
      NLPLGVLPH QDRNKSPLL DV
    CDS sequence
    • >TC002880 RA
      atgtctttg tcgcagaaa cactacgga aaagtgtta 
      gtcccctgg tttaacaca gcggaatgg aaagccgtc 
      tacaattta atttactcg gaaacaggc caggactgg 
      ccgaaggcc ttgtccatt ttaaaaatc tggaagctc 
      cgaacgccc ttattatca tcaggggtg gagggaacc 
      ctcatagtc ctggaagcc cttctcgta aacacaaat 
      cttctgtct tcgtacgaa actagccac attttttgc 
      acctctctg gtccgtttc ttaaacttg tgtgctgcc 
      aacagcgcc aaacaaggc acgttttat aaaactgcg 
      ataaagaat gatttgcca aagtggctg attggtttg 
      agacatgat atcgcccac agtcacaac gttccacct 
      ttgtcgatg ttagaattg ggtcttaag ttttgtttg 
      ggttggttg aaagggaaa tactgggac gtgcagtgt 
      gacaacatg gctgatttt gtggttgag aaagcgaca 
      ggcaatggt attgaggat gcgttttat attttggaa 
      aatctgggc gagaatgga gtgcacgaa aatattaaa 
      ttaatgaag aagattaat aatttcgtg ggggaagca 
      cagaaacag accagttgc aaaaaaatg caagaatat 
      gtgctaaat agattgcgg aaagaaata acaactaat 
      aaagaagca agtgttggt gcactttgt aaattactg 
      attgatgat cttacaatt ttgtcaatt cagatagag 
      attgatgag tcaggggtt aaaagaatt ccgcctgat 
      tatttaaat aaatggaat aaattattc ggtggtatg 
      tacgaagca caaataatg cctgatttt atttacaaa 
      ctatttaac ttcgtgtgt gacgacaga aacgatttg 
      ttacacaga gaagttgca agtttatgg atcaaagaa 
      attttttta gccctcatt aatcaacaa aataatgat 
      aaaaatata gctgttttg tcgttctca agtcacaat 
      aattctttg aaagacaaa catttagta acagaagtg 
      ctggaaaga ctaacccct ttcactcca aattttgct 
      agagaggtt ttaatttac aacaacgct cctgttgaa 
      ttaattgag gattcactt tgcctcatg tctgcattt 
      gatacacac agtgccacc actaatggg aaaattttt 
      acagttgat gatttagat ttaattgaa gaaactttt 
      aatgatgta agggacgtg ccaacgcaa tcaaaatcg 
      cgctggact ttaattgaa gatacaagt ttgttcctt 
      aatttgccc ttaggagtc ttgccccat caagacaga 
      aataaaagt cctcttcta gatgtatga
    mRNA sequence
    • >TC002880 RA
      atattttta atttttcgt aaaaatgtg gtcttgtaa 
      ttttgtctt caattaaac ttgagctag ttagagaca 
      gttaaagag atcaacaat gtctttgtc gcagaaaca 
      ctacggaaa agtgttagt cccctggtt taacacagc 
      ggaatggaa agccgtcta caatttaat ttactcgga 
      aacaggcca ggactggcc gaaggcctt gtccatttt 
      aaaaatctg gaagctccg aacgccctt attatcatc 
      aggggtgga gggaaccct catagtcct ggaagccct 
      tctcgtaaa cacaaatct tctgtcttc gtacgaaac 
      tagccacat tttttgcac ctctctggt ccgtttctt 
      aaacttgtg tgctgccaa cagcgccaa acaaggcac 
      gttttataa aactgcgat aaagaatga tttgccaaa 
      gtggctgat tggtttgag acatgatat cgcccacag 
      tcacaacgt tccaccttt gtcgatgtt agaattggg 
      tcttaagtt ttgtttggg ttggttgaa agggaaata 
      ctgggacgt gcagtgtga caacatggc tgattttgt 
      ggttgagaa agcgacagg caatggtat tgaggatgc 
      gttttatat tttggaaaa tctgggcga gaatggagt 
      gcacgaaaa tattaaatt aatgaagaa gattaataa 
      tttcgtggg ggaagcaca gaaacagac cagttgcaa 
      aaaaatgca agaatatgt gctaaatag attgcggaa 
      agaaataac aactaataa agaagcaag tgttggtgc 
      actttgtaa attactgat tgatgatct tacaatttt 
      gtcaattca gatagagat tgatgagtc aggggttaa 
      aagaattcc gcctgatta tttaaataa atggaataa 
      attattcgg tggtatgta cgaagcaca aataatgcc 
      tgattttat ttacaaact atttaactt cgtgtgtga 
      cgacagaaa cgatttgtt acacagaga agttgcaag 
      tttatggat caaagaaat ttttttagc cctcattaa 
      tcaacaaaa taatgataa aaatatagc tgttttgtc 
      gttctcaag tcacaataa ttctttgaa agacaaaca 
      tttagtaac agaagtgct ggaaagact aaccccttt 
      cactccaaa ttttgctag agaggtttt aatttacaa 
      caacgctcc tgttgaatt aattgagga ttcactttg 
      cctcatgtc tgcatttga tacacacag tgccaccac 
      taatgggaa aatttttac agttgatga tttagattt 
      aattgaaga aacttttaa tgatgtaag ggacgtgcc 
      aacgcaatc aaaatcgcg ctggacttt aattgaaga 
      tacaagttt gttccttaa tttgccctt aggagtctt 
      gccccatca agacagaaa taaaagtcc tcttctaga 
      tgtatgaag tttataaat ataattttt gctgattt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY