Status
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Gene information
General information
TC003290 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: 809643..812378
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
    TC003290
    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_00548

    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: 50.0% (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: 2 (9 dpi)
    Days post injection


    Fertility
    mature egg not present - Number of animals showing the phenotype: 4

    egg chamber number decreased - Number of animals showing the phenotype: 4
    egg chamber fused - Number of animals showing the phenotype: 4
    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: 70.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

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


    pupal molt not fulfilled (died as prepupa) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    pupal molt not fulfilled (died as pupa) - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    larva lethality late (L7) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection


    Pupal morphology
    antenna shortened - Number of animals showing the phenotype: 6

    head bent - Number of animals showing the phenotype: 3

    wings size decreased - Number of animals showing the phenotype: 6

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC003290 RA
      MEADDEPAM KKPKFEEPQ AKSNSSQPE IEPPSDNSD 
      RKGGKPQTH RLCPYLDTI NRQYLDFDF EKLCSVSLT 
      RINVYACLV CGKYFQGRG TNTHAYTHS VAEGHHVFL 
      NLHTLKFYC LPDNYEIID SSLDDIKYL LNPTFTEQH 
      ISTLDVSTK MSRAIDGLL YMPGIVGLN NIKANDYCN 
      VVLQALSRV VPLRNYFLR EENYSKIKR PPGDSSYLL 
      VQRYGELMR KLWNPRNFK AHVSPHEML QAVVLWSKK 
      RFQITAQGD PIDFLSWFL NALHRALNG NKKKNSSII 
      YQSFLGNMK IYTRKIPPT ELDDRQKRM LLSTPEYQE 
      IITESPFLY LTCDLPPPP LFIDEFREN IIPQVNLYQ 
      LLTKFNGQT EKEYKTYKE NFLKKFEIT RLPPYLILY 
      IKRFTKNTF YVEKNPTIV NFPVRNVDF GEFLTPEVK 
      AKHKHTVYD LVANIVHDG EPGKGTYRV HILQKSTGK 
      WYEMQDLHV TDILPQMIT LTEAYIQIY ELRLEK
    CDS sequence
    • >TC003290 RA
      atggaagcg gacgatgaa cctgccatg aaaaagccc 
      aagttcgag gagccccaa gccaaatca aactcctca 
      caacccgaa attgagccc ccttctgac aattcggac 
      cggaaaggt gggaagccc caaacgcat cgactgtgc 
      ccctatttg gacacaatc aaccggcaa tatctcgac 
      tttgatttc gaaaaattg tgctcagtg tcgttgact 
      cgcatcaac gtttatgcc tgtcttgtt tgcggaaaa 
      tatttccaa ggtagaggc acaaacaca catgcttat 
      acgcattcg gtggccgaa ggccaccac gttttcctc 
      aacttgcac accttgaag ttttactgc ttgcccgac 
      aattatgaa ataatagat tcgtccctc gacgacatt 
      aaatacctg ctcaacccc acatttacc gaacaacac 
      atcagtaca ttggacgtt agcacaaaa atgtcccga 
      gcaattgat ggcctactt tacatgcca ggaatcgtc 
      ggtttaaac aacataaaa gcgaacgat tactgtaat 
      gttgtttta caagccctt tcacgtgtt gtcccttta 
      cgtaattac ttcctccgt gaggagaac tacagcaag 
      ataaaacgc cccccaggt gactcctct tacctcctg 
      gtgcaacgt tacggtgaa ctgatgcgt aaattatgg 
      aacccccga aatttcaaa gcccacgtt tcgccgcac 
      gaaatgctc caagctgtg gttttgtgg agcaaaaag 
      cgcttccaa attacggca caaggcgac cccattgat 
      ttcctttcg tggtttttg aacgcactt catcgggca 
      cttaacggc aataaaaag aaaaacagt tccatcatt 
      taccagtca ttcctcgga aacatgaaa atttacacc 
      aggaaaata ccaccgacc gagcttgac gacagacag 
      aaacgcatg cttttgtca actccagag taccaggag 
      atcatcacc gagtcaccc ttcttgtac ctcacctgc 
      gacttgcct ccaccgcct ctcttcatc gacgagttc 
      cgggagaat atcatcccc caggtgaac ttgtaccag 
      ctcctcacc aagttcaac ggacagacc gagaaggag 
      tacaagact tacaaggag aatttcctc aagaagttt 
      gagattacg cgtttgccg ccttattta atcttgtat 
      attaagagg tttacgaag aacacgttc tacgtggag 
      aagaatcca accattgtg aattttccg gttaggaat 
      gttgatttt ggcgagttt ttgacgccc gaagttaag 
      gccaaacat aaacatacg gtctatgat ctagtggcg 
      aatattgtg catgatgga gagccgggg aaaggcact 
      tacagggtt catattttg caaaaatca acgggcaag 
      tggtacgag atgcaggac ttgcatgtg acggatatt 
      ttgccgcag atgattacg ctgacggag gcttatata 
      caaatttat gagctaaga ttagaaaag taa
    mRNA sequence
    • >TC003290 RA
      agtaaatat aaccttaaa gttgcaaac accacacaa 
      aaacagtcc tagcgtgat ttaatcaaa aattaatta 
      aaaaagcgt gaatacgat ggaagcgga cgatgaacc 
      tgccatgaa aaagcccaa gttcgagga gccccaagc 
      caaatcaaa ctcctcaca acccgaaat tgagccccc 
      ttctgacaa ttcggaccg gaaaggtgg gaagcccca 
      aacgcatcg actgtgccc ctatttgga cacaatcaa 
      ccggcaata tctcgactt tgatttcga aaaattgtg 
      ctcagtgtc gttgactcg catcaacgt ttatgcctg 
      tcttgtttg cggaaaata tttccaagg tagaggcac 
      aaacacaca tgcttatac gcattcggt ggccgaagg 
      ccaccacgt tttcctcaa cttgcacac cttgaagtt 
      ttactgctt gcccgacaa ttatgaaat aatagattc 
      gtccctcga cgacattaa atacctgct caaccccac 
      atttaccga acaacacat cagtacatt ggacgttag 
      cacaaaaat gtcccgagc aattgatgg cctacttta 
      catgccagg aatcgtcgg tttaaacaa cataaaagc 
      gaacgatta ctgtaatgt tgttttaca agccctttc 
      acgtgttgt ccctttacg taattactt cctccgtga 
      ggagaacta cagcaagat aaaacgccc cccaggtga 
      ctcctctta cctcctggt gcaacgtta cggtgaact 
      gatgcgtaa attatggaa cccccgaaa tttcaaagc 
      ccacgtttc gccgcacga aatgctcca agctgtggt 
      tttgtggag caaaaagcg cttccaaat tacggcaca 
      aggcgaccc cattgattt cctttcgtg gtttttgaa 
      cgcacttca tcgggcact taacggcaa taaaaagaa 
      aaacagttc catcattta ccagtcatt cctcggaaa 
      catgaaaat ttacaccag gaaaatacc accgaccga 
      gcttgacga cagacagaa acgcatgct tttgtcaac 
      tccagagta ccaggagat catcaccga gtcaccctt 
      cttgtacct cacctgcga cttgcctcc accgcctct 
      cttcatcga cgagttccg ggagaatat catccccca 
      ggtgaactt gtaccagct cctcaccaa gttcaacgg 
      acagaccga gaaggagta caagactta caaggagaa 
      tttcctcaa gaagtttga gattacgcg tttgccgcc 
      ttatttaat cttgtatat taagaggtt tacgaagaa 
      cacgttcta cgtggagaa gaatccaac cattgtgaa 
      ttttccggt taggaatgt tgattttgg cgagttttt 
      gacgcccga agttaaggc caaacataa acatacggt 
      ctatgatct agtggcgaa tattgtgca tgatggaga 
      gccggggaa aggcactta cagggttca tattttgca 
      aaaatcaac gggcaagtg gtacgagat gcaggactt 
      gcatgtgac ggatatttt gccgcagat gattacgct 
      gacggaggc ttatataca aatttatga gctaagatt 
      agaaaagta attttttac gaataaaat tctatcacc 
      gga
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY