Status
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Gene information
General information
TC009439 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_007422.5: 1246673..1269464
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
    TC009439
    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_04633

    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: 10.0% (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


    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
    • >TC009439 RA
      MAATDGQIT VAAARWAEE GSYLREFVS KYQLPAVVK 
      IIKGQYGGL GVPTLPSPG LQSSALLVS AGKRQKIVA 
      QAVKIKEGR RLVCVGPRL VIPDTYSGY FELLSEEGR 
      AVRCIESVS ELARRRPEE GCLVRETIR GVQARGDAD 
      AVVPEGART VPAGEVLVP AGEVLVSGS KGRYLKCLD 
      SKGDTILLG LEQRGKFSA LAREDNISG VHTAKNLLS 
      KRLPLTVRL VHGTAPRGL KSPSHFVPE LRLLSVFEE 
      EHVFALPLQ KDAHSVTAL PLAAPLKLL RARNDDQLK 
      TLPEFHRLV EKCTKLVAD VADRIQVLD GKLGDSKKH 
      STPIVEPKN NGYLLRRSA SSDSANHRT KHSHHHPIH 
      SKDYDEIDQ IYDYVRGFA PLPKNIRSP FSDPSPSLT 
      SHSSTPSHP VSDLKPEPP PIETIPTKK IQAEKRIRK 
      AEKTPPGLP KLYVKNGQS QRSRLLRQK SASPMKETP 
      PSPISKSGS PLFNIRYKS LNNLQAMEL DGTLDSSNS 
      GGRASGDSG GVVKQPEKR SRKLSRPRS LTNLVWEIR 
      EHPDISMPV VDKPKKIEP AAIVYKKHS KYSINGPSQ 
      RRGTLYL
    CDS sequence
    • >TC009439 RA
      atggccgca accgatggt caaataaca gtagcagcc 
      gcgcgatgg gccgaggaa ggcagttac ctccgcgaa 
      ttcgtctcc aaataccag ctcccagcc gtcgtgaaa 
      ataatcaaa ggccaatac ggcggtctg ggagtcccc 
      accctccct agccccggc ctccagtcc agcgccctc 
      ctggtctct gccggcaag cgccaaaaa atcgtagcc 
      caagccgtc aaaatcaaa gaaggacga agactggtc 
      tgcgtcggt ccgcgtcta gtgatcccc gacacctac 
      agcggctac ttcgagctc ctgagcgag gagggtcgc 
      gctgtgcgc tgcatcgag agcgtgtcc gagctggcg 
      cggaggcgc cccgaagag ggctgtctg gtgcgggag 
      accatccgc ggggtgcag gcccggggc gacgccgac 
      gcggtggtg cccgagggg gcgcgcacg gtccccgcc 
      ggagaggtt ctagtccct gcaggggaa gtcctagtc 
      tcgggttcc aaaggccgg tacctgaag tgtctcgat 
      tcgaagggt gacaccatt cttctgggg ttggagcaa 
      aggggcaag ttttcggcg cttgcgcgg gaggacaat 
      atcagtggg gttcacacc gccaagaat ctactgagt 
      aagaggctg ccgctcacg gtgaggttg gtccacggg 
      acggcgccc cgggggctc aagagcccc agtcatttc 
      gtgccagaa cttagatta ctttcggtg tttgaggag 
      gagcacgtc ttcgcgctg ccccttcag aaggacgcc 
      cacagcgtg accgccctg cccttggca gcccccttg 
      aagctcctc cgcgcccgc aacgacgac cagctgaaa 
      acgctgccc gagttccac cggctggtg gaaaagtgc 
      accaagttg gtggccgac gtcgccgac aggatccag 
      gtgctggac ggcaagttg ggcgactcg aagaagcac 
      tcgaccccg attgtcgag cccaaaaac aacgggtat 
      ttgctgcgt cggagcgcg tcgtcggat tcggcgaac 
      caccgcacc aagcactcc caccaccat cccatccat 
      tcgaaggat tacgacgaa atcgaccag atttatgat 
      tacgtgcgt ggattcgct ccgttaccc aagaacatc 
      cgctcgccc ttttccgac ccttcgccc tcgctcacc 
      tcgcacagc tccacacct tcgcatcct gtctccgat 
      ctcaagccg gaaccgccg cccatcgag accataccc 
      accaagaag attcaggcg gaaaagagg atacgcaag 
      gcggaaaag acgccccca ggtctcccc aagctctac 
      gtcaagaac ggtcagtcc cagcgcagc cgcctcctg 
      cgccagaaa agcgcctcc cccatgaag gagaccccc 
      ccaagcccc atctccaaa tccggctct cccctcttc 
      aacatccgg tacaaatcc ctgaacaac ctccaggcc 
      atggagctg gacggcacg ctcgactcg agcaattcc 
      ggcggccgc gcctccggg gactccggc ggagtggtg 
      aaacagccc gagaagagg tcccggaag ctgtcgcga 
      cctcgcagc ttgaccaac ttagtctgg gaaatccgg 
      gaacacccc gacatttcg atgccagtc gtggacaaa 
      ccgaagaaa atcgaacca gcggccata gtctataag 
      aagcattcc aagtattcg attaacgga cccagtcag 
      cgcagggga acgctctat ttataa
    mRNA sequence
    • >TC009439 RA
      cgggattac tcagacttg tatctcgct ctgcgagtt 
      ggtaacttg ccgaaggaa gagtcgatg ccagagcaa 
      gagctgcta gtagttggt tgtggggtt cgcagctga 
      aaggtgcgc tcagttcca agctgttcg ttgcccgga 
      ttatactct gtgtggtgt gcgttcggt tcgattctt 
      ttgcctcga taaaaatga cgagtgatt tgaattatg 
      tgtgaagtg aacagcggt gcactttta atggatatt 
      tacaaaaat aacgcaacc ggagattat ataccagat 
      gatcatctc gtggtgcta gaatggccg caaccgatg 
      gtcaaataa cagtagcag ccgcgcgat gggccgagg 
      aaggcagtt acctccgcg aattcgtct ccaaatacc 
      agctcccag ccgtcgtga aaataatca aaggccaat 
      acggcggtc tgggagtcc ccaccctcc ctagccccg 
      gcctccagt ccagcgccc tcctggtct ctgccggca 
      agcgccaaa aaatcgtag cccaagccg tcaaaatca 
      aagaaggac gaagactgg tctgcgtcg gtccgcgtc 
      tagtgatcc ccgacacct acagcggct acttcgagc 
      tcctgagcg aggagggtc gcgctgtgc gctgcatcg 
      agagcgtgt ccgagctgg cgcggaggc gccccgaag 
      agggctgtc tggtgcggg agaccatcc gcggggtgc 
      aggcccggg gcgacgccg acgcggtgg tgcccgagg 
      gggcgcgca cggtccccg ccggagagg ttctagtcc 
      ctgcagggg aagtcctag tctcgggtt ccaaaggcc 
      ggtacctga agtgtctcg attcgaagg gtgacacca 
      ttcttctgg ggttggagc aaaggggca agttttcgg 
      cgcttgcgc gggaggaca atatcagtg gggttcaca 
      ccgccaaga atctactga gtaagaggc tgccgctca 
      cggtgaggt tggtccacg ggacggcgc cccgggggc 
      tcaagagcc ccagtcatt tcgtgccag aacttagat 
      tactttcgg tgtttgagg aggagcacg tcttcgcgc 
      tgccccttc agaaggacg cccacagcg tgaccgccc 
      tgcccttgg cagccccct tgaagctcc tccgcgccc 
      gcaacgacg accagctga aaacgctgc ccgagttcc 
      accggctgg tggaaaagt gcaccaagt tggtggccg 
      acgtcgccg acaggatcc aggtgctgg acggcaagt 
      tgggcgact cgaagaagc actcgaccc cgattgtcg 
      agcccaaaa acaacgggt atttgctgc gtcggagcg 
      cgtcgtcgg attcggcga accaccgca ccaagcact 
      cccaccacc atcccatcc attcgaagg attacgacg 
      aaatcgacc agatttatg attacgtgc gtggattcg 
      ctccgttac ccaagaaca tccgctcgc ccttttccg 
      acccttcgc cctcgctca cctcgcaca gctccacac 
      cttcgcatc ctgtctccg atctcaagc cggaaccgc 
      cgcccatcg agaccatac ccaccaaga agattcagg 
      cggaaaaga ggatacgca aggcggaaa agacgcccc 
      caggtctcc ccaagctct acgtcaaga acggtcagt 
      cccagcgca gccgcctcc tgcgccaga aaagcgcct 
      cccccatga aggagaccc ccccaagcc ccatctcca 
      aatccggct ctcccctct tcaacatcc ggtacaaat 
      ccctgaaca acctccagg ccatggagc tggacggca 
      cgctcgact cgagcaatt ccggcggcc gcgcctccg 
      gggactccg gcggagtgg tgaaacagc ccgagaaga 
      ggtcccgga agctgtcgc gacctcgca gcttgacca 
      acttagtct gggaaatcc gggaacacc ccgacattt 
      cgatgccag tcgtggaca aaccgaaga aaatcgaac 
      cagcggcca tagtctata agaagcatt ccaagtatt 
      cgattaacg gacccagtc agcgcaggg gaacgctct 
      atttataaa aagtatgta ccctccagc ttaagctgt 
      ttgtgattt gtgtattgt aactttttt taaagttct 
      gtttaagac ttgtgattt ctagtttgt agaggagtt 
      atttaaagt gaacggttt gtgataacg ctctgcttg 
      aaatgacgc gactaaaag tccagtccc ttcagagat 
      gaataaaat tatttgagt gaattttgg tcgcgccgg 
      aagtggggt ctttgactg gctaaaacg tctcgaaaa 
      gtgtttatt tatgcacac gatgatgca gtgaccgtt 
      agaaaaatg gtgtaaaga aatttcgtc ttgactgta 
      gctgcgact aattgattt caatttcga ctcgtttaa 
      ttttaatta gctatgctc tagtaatgt tgtttttgc 
      ggcttttcg agttaccaa taaggcgca ggaagaaag 
      cgctagttt caaatggat tcgttatca ctaaattgt 
      tttgccata attttgtaa ttaggcaaa gttactgat 
      gcttatttt tcatctgtg atgaaacca tgtcgtttt 
      ttatacctt atttagttt tgtaagttt aagtttttc 
      aacgaaaca caaatgcct ttgaattgt gctttaggc 
      atgcaaact tgtagttaa ttgtttgta ttccgaata 
      tagaaatgc aaattgtct atgtatttt tggatcctc 
      aaatttatc actgtttac cgagcgtcg atgtatatt 
      tattcagca gtttgtaaa atatattga aaataaaga 
      atttgtgtt tac
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY