Status
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Gene information
General information
TC000469 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_007417.3: 10911650..10913437
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
    TC000469
    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
    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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    Publish name
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_10526

    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)

    Fertility
    mature egg deposition blocked number 1st lateral oviduct: number 2nd lateral oviduct: - Number of animals showing the phenotype: 3

    ovary without detectable defects - Number of animals showing the phenotype: 1
    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
    • >TC000469 RA
      MDLIFGLMT IAAIYLWVL FMDRFFKSC SHYGYIQFL 
      KGTGLEIKL FQFSWTTTA FNKLLLKWG SHNTKFLNL 
      WFNLGLCVS LVLLPASIY LLLVAFFQN FLSSASGEE 
      SIIQPVVPG INLPASEMG YYSLTLLIS SVLHELGHA 
      LGAVQEDVN VINVGANVI FILPVAYVN LNSDKLFSL 
      NPWKRLKIL CAGVWHNLL IALVAYLLY TSLPSVFSP 
      FFNFGKGVV VTEFEAKSP IFGNRGLNV GDLILKIND 
      CEVDDENAW YKCLVALRT KKPAFCIEG DVVRDLDES 
      VHLKHSESG IVSCCHSEN KGKLCFEYL DSKDSILEL 
      PPYACLPGR PAIEASTNF CISDPHVCP KDTYCFRPI 
      LTNNTNLFK IKRVNKNDV IYIGPVSDL VRTVTVSSY 
      VPKYSFLGT RIPDVTTKF LGYLAMFSM GLALVNILP 
      CLFMDGQHI TNTLFHIIF ASHLRTTHI KIISGVVTA 
      SFTLLLVIH CVIVIWTRL N
    CDS sequence
    • >TC000469 RA
      atggacttg atttttggc ttaatgaca atagcggcg 
      atttactta tgggttctc ttcatggac aggtttttt 
      aaatcatgt tctcattac ggatacatc caatttctt 
      aaaggaacg ggcctggag atcaaattg ttccagttt 
      tcgtggacc acgacagcc tttaataaa ttgctgctt 
      aagtggggc agtcacaac acgaaattt cttaatttg 
      tggtttaat ttggggcta tgtgtgagt ttagttttg 
      ctgcctgct tcgatctac ctattgtta gtggctttc 
      ttccaaaac tttttgtct tcggcaagt ggcgaggaa 
      agcataatt cagccggta gtcccggga ataaacctt 
      ccagcatcc gaaatgggt tactacagt ttaactttg 
      ctaatcagt tcggttttg cacgagcta ggccatgcg 
      ttaggggct gtgcaagaa gacgtaaat gtgatcaat 
      gtgggcgcc aacgtaatt tttattttg ccagtggct 
      tacgttaac ttaaattcc gacaaatta ttttctcta 
      aatccttgg aaaagactc aagattttg tgcgccgga 
      gtttggcac aacttgcta attgcactc gtagcttac 
      ttactctac acttctcta ccgtccgtt ttttcaccg 
      tttttcaac tttggtaaa ggagttgtg gtaacggaa 
      tttgaggca aaatcgcca attttcgga aataggggt 
      ttaaatgtt ggcgattta attttgaaa attaatgat 
      tgtgaggtg gacgatgaa aatgcgtgg tacaaatgt 
      ttagtggct ttacgcaca aaaaagccc gcgttttgt 
      attgagggc gacgttgtg cgcgatctg gatgagagc 
      gttcatttg aaacactcc gaaagtggg attgtaagc 
      tgctgccat tcagagaat aaaggcaaa ttgtgtttt 
      gagtacttg gatagtaaa gacagcatt ttggagctg 
      cccccttac gcctgtttg cctggaaga cctgcgatc 
      gaagcctcg acaaatttc tgcatatct gacccccat 
      gtttgcccc aaagatact tattgtttc agaccgatt 
      ttaacgaat aacacgaat ttgtttaaa atcaagcga 
      gtcaacaaa aacgacgtt atctacatt gggcccgtg 
      tctgatctt gtgaggaca gtgacggtg tcctcatac 
      gtcccaaaa tattcgttt ttagggacg cgaattccc 
      gatgttact accaaattt ctagggtat ttagctatg 
      ttttcaatg gggctggct ctagttaat atcttgccc 
      tgtctgttt atggacggc cagcacata acgaacact 
      ttgttccac ataatattc gcgagtcat ttgaggacc 
      actcatatc aagattatt tcaggcgtt gtgaccgct 
      tctttcaca ctcttgtta gtgattcac tgcgttatt 
      gtcatatgg actagactt aattaa
    mRNA sequence
    • >TC000469 RA
      cttaaaaat ggacttgat ttttggctt aatgacaat 
      agcggcgat ttacttatg ggttctctt catggacag 
      gttttttaa atcatgttc tcattacgg atacatcca 
      atttcttaa aggaacggg cctggagat caaattgtt 
      ccagttttc gtggaccac gacagcctt taataaatt 
      gctgcttaa gtggggcag tcacaacac gaaatttct 
      taatttgtg gtttaattt ggggctatg tgtgagttt 
      agttttgct gcctgcttc gatctacct attgttagt 
      ggctttctt ccaaaactt tttgtcttc ggcaagtgg 
      cgaggaaag cataattca gccggtagt cccgggaat 
      aaaccttcc agcatccga aatgggtta ctacagttt 
      aactttgct aatcagttc ggttttgca cgagctagg 
      ccatgcgtt aggggctgt gcaagaaga cgtaaatgt 
      gatcaatgt gggcgccaa cgtaatttt tattttgcc 
      agtggctta cgttaactt aaattccga caaattatt 
      ttctctaaa tccttggaa aagactcaa gattttgtg 
      cgccggagt ttggcacaa cttgctaat tgcactcgt 
      agcttactt actctacac ttctctacc gtccgtttt 
      ttcaccgtt tttcaactt tggtaaagg agttgtggt 
      aacggaatt tgaggcaaa atcgccaat tttcggaaa 
      taggggttt aaatgttgg cgatttaat tttgaaaat 
      taatgattg tgaggtgga cgatgaaaa tgcgtggta 
      caaatgttt agtggcttt acgcacaaa aaagcccgc 
      gttttgtat tgagggcga cgttgtgcg cgatctgga 
      tgagagcgt tcatttgaa acactccga aagtgggat 
      tgtaagctg ctgccattc agagaataa aggcaaatt 
      gtgttttga gtacttgga tagtaaaga cagcatttt 
      ggagctgcc cccttacgc ctgtttgcc tggaagacc 
      tgcgatcga agcctcgac aaatttctg catatctga 
      cccccatgt ttgccccaa agatactta ttgtttcag 
      accgatttt aacgaataa cacgaattt gtttaaaat 
      caagcgagt caacaaaaa cgacgttat ctacattgg 
      gcccgtgtc tgatcttgt gaggacagt gacggtgtc 
      ctcatacgt cccaaaata ttcgttttt agggacgcg 
      aattcccga tgttactac caaatttct agggtattt 
      agctatgtt ttcaatggg gctggctct agttaatat 
      cttgccctg tctgtttat ggacggcca gcacataac 
      gaacacttt gttccacat aatattcgc gagtcattt 
      gaggaccac tcatatcaa gattatttc aggcgttgt 
      gaccgcttc tttcacact cttgttagt gattcactg 
      cgttattgt catatggac tagacttaa ttaaattgt 
      tgaataaaa ccgtttttt atctaacaa gtgtattca 
      tttcaatca caacctatt ttgccaaag aaatggtat 
      tttccagtt cctttaaac acctttccc cgtacttga 
      tgtacattt taatagtta tctcatccg tgtgatgag 
      cgttgctcc tgaaatcac gtcttgccc attccttca 
      gctcctgct ggtgcccct gatcgggca cttgccgta 
      tagccctga agattttcc tgtaaagat tcttaactt 
      cttgtttca agataaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY