Status
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Gene information
General information
TC003872 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: 24042794..24050954
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
    TC003872
    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_03641

    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: 0.0% (includes death as pupa, adult)

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen partially everted (inside-out) - 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): 50% - 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


    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 3 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC003872 RA
      MVFEITGKV ALISGGASG IGLRYAKEL LRSGLKGVT 
      LADVNNAFG QKALQEIEK EFGPKKAIY VQTDVTDMK 
      SFENAFKKT IEAFQNLDI LINNAGILN DATWEKEVA 
      ININGVIHG VLLGLENYI PKYKSSAEG VIVNISSIA 
      GIKEFSIIP IYTATKFAV MGMSKAFGD EDHYNRTKV 
      KVLALCPGV TDTPLITEI DGKNLGPPY QKLLEENLS 
      KLPSQQPEC VARAMVKII KNAKTGTVW VAEGGQEPY 
      EFILPERES FAPE
    CDS sequence
    • >TC003872 RA
      atggttttt gaaataaca ggcaaagtc gctctgatt 
      tctggaggc gcctctgga attggtctc agatatgcc 
      aaagaatta ctgagaagt ggtttgaag ggtgttact 
      ttagccgat gttaacaat gcatttggg caaaaagcg 
      ttacaagaa attgaaaaa gagtttggt ccaaagaag 
      gccatttac gttcaaaca gacgtaaca gatatgaaa 
      agttttgaa aacgctttt aaaaaaaca attgaagca 
      tttcaaaac ctagatatt ctcatcaac aatgcggga 
      attctgaat gatgccact tgggagaaa gaagttgca 
      ataaatatt aacggagtg attcatggc gttctcctt 
      gggcttgaa aattacatt ccgaaatat aaatctagt 
      gcagaagga gttattgtg aacatttcg tccattgct 
      ggcatcaaa gaattcagt attattccg atatacact 
      gctacaaaa tttgcagtg atgggaatg agtaaagct 
      tttggagat gaagaccat tacaaccgt accaaagtc 
      aaagttcta gctttgtgt cctggagtt actgacaca 
      ccgttgatt actgaaatt gatggcaaa aatttaggt 
      ccgccgtat caaaaattg cttgaagaa aatctcagc 
      aaattgcca tctcaacag cctgagtgt gttgcacga 
      gcaatggta aaaattatc aaaaatgca aagactgga 
      actgtgtgg gtggctgag ggtggccaa gagccatat 
      gaatttatt ttgcctgag agggaaagt tttgctcca 
      gaataa
    mRNA sequence
    • >TC003872 RA
      tataatatg tataataaa taataattt atgcagtat 
      gtaatgtta tgtacaaaa tgtattcat tttataaca 
      ataatgttt atacaaata tttaaatgt gcagtctct 
      cgcttctta gcagttgtg ttaagtaac ttgatcgtt 
      ataaaatta accaaaatg aaaattgat gcgattgtc 
      tataagcat agatgcaaa tctattgat tcatcagtt 
      tattatcaa taaaacgta cttaactta atgaaaact 
      aaataggat gggataaag atgaaagag agatacaat 
      caaacaagt tcgtaataa ttattattt aaaacaatg 
      caaaagatg ctgggaatg aaaacgtga acattctgt 
      gctgtaatc tattgcaac taccatcga ataatacct 
      gtttttcgg tacgaaata aaaaattgt atctcagtt 
      gaataatac aggtattat gtacggcaa atgtgtaac 
      aaaatcaac tattataat tatgacatt ttctacaaa 
      acgtgaaaa actattaca atcgtcgca tgattgatg 
      atttagtat gcagcgatt gacacaaac aacaagggc 
      atctatcac accaacatc tctaacaac attactcgc 
      acaatgtat tgtaacatt ttcgtaata aaaaataaa 
      aaatctcaa tagaaatat aaaagtgca tgttgaaaa 
      aatatgttg gtgggtact tgtgtgttt ttacatgaa 
      atttcgtcg attaaagct ctctatttc gccttgcat 
      tggcatact aaatctttt tgttgaatg cgcaatttc 
      acgataaat aattattca caaaataaa gtcatgtaa 
      caatattct tacactctt tgcttaaaa ttaatgtaa 
      tcacagaca aaaataagc ttggccagt cgtaatttc 
      ttgttttct ctttgcgcc tgatttaaa caacctctc 
      agcttatga ggaagcagc gaggctggt tattatatt 
      gctgaattc attgactaa cttatccac tcctcacac 
      aaccttttt tcaatatgc aagtcttcg agaaattcc 
      ttcgtgttt catcgtaat aaatgttgg caatctgtg 
      gctatttat aatttgatt aacacttaa ggattcact 
      gcagctaga agataaggg taattccgt ataaatcgc 
      atgacatta gccttccta tcttcaaaa acagaacaa 
      ctcatctat cacttgtga acctctgca aaatgcata 
      gctgcttgc actaaacat tgcgtttaa gtcttaaaa 
      ttggtttat taacacgtg actttttag aatataatt 
      gtggcaaaa aataacaat gcatttagt ttaaaaatt 
      atttctaag aatgtcata aatgtctcc aacaacaaa 
      gcactttgt tatgcacca tctttatta tttttcgtg 
      agaattttg gacgaacgt cactccgtg tttccgaat 
      tatcttcca tattaacag ttcttctag tttcaagct 
      tcgaaattc ctggccgtt tctagtcgt actaagtct 
      agggaatga ttcaaattc ctgaaatca gaaaaattg 
      ataaaatgc ttcctttaa ttgctaaaa ctgcttcat 
      ctttcatta gttgcgcaa caacactgt aaagaaaac 
      ctaaaatgg tttttgaaa taacaggca aagtcgctc 
      tgatttctg gaggcgcct ctggaattg gtctcagat 
      atgccaaag aattactga gaagtggtt tgaagggtg 
      ttactttag ccgatgtta acaatgcat ttgggcaaa 
      aagcgttac aagaaattg aaaaagagt ttggtccaa 
      agaaggcca tttacgttc aaacagacg taacagata 
      tgaaaagtt ttgaaaacg cttttaaaa aaacaattg 
      aagcatttc aaaacctag atattctca tcaacaatg 
      cgggaattc tgaatgatg ccacttggg agaaagaag 
      ttgcaataa atattaacg gagtgattc atggcgttc 
      tccttgggc ttgaaaatt acattccga aatataaat 
      ctagtgcag aaggagtta ttgtgaaca tttcgtcca 
      ttgctggca tcaaagaat tcagtatta ttccgatat 
      acactgcta caaaatttg cagtgatgg gaatgagta 
      aagcttttg gagatgaag accattaca accgtacca 
      aagtcaaag ttctagctt tgtgtcctg gagttactg 
      acacaccgt tgattactg aaattgatg gcaaaaatt 
      taggtccgc cgtatcaaa aattgcttg aagaaaatc 
      tcagcaaat tgccatctc aacagcctg agtgtgttg 
      cacgagcaa tggtaaaaa ttatcaaaa atgcaaaga 
      ctggaactg tgtgggtgg ctgagggtg gccaagagc 
      catatgaat ttattttgc ctgagaggg aaagttttg 
      ctccagaat aaatttact ataatgttg tttacaaat 
      aaagatttc taaggtgt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY