Status
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Gene information
General information
TC009000 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: 8929839..8934445
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
    TC009000
    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
    {{ goGene }}
    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_08743

    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)

    adult lethality - Number of animals showing the phenotype: 1 (9 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
    • >TC009000 RA
      MWLRSEKRK NFRAICLNR IRKVRKSRI GPKQKKTET 
      PTLSDECKE NFQAQVVPE FSPAEGPTA ETELKCFEY 
      FEANNAVSY EKTPPDIVL NSDLPKEIE YSNFNSGLA 
      MACEETLNH PDYASSMQF HVTDKKACD KYNFDVFSE 
      KICESMYYE YGSLRDDYQ DVQFDVNDL NNVNTQEFT 
      NMLDEEMAQ ANIGNVVYD YTTLYPVSI PEGHMISNI 
      TPESEDRLD KQPEHVEVE DTWEAFDPY FFIKHLPPL 
      TFDMRSKCP ALPLKTRSS PEFSLVLDL DETLVHCSL 
      QELSDASFH FPVLFQDCS YTVYVRTRP YFREFMEKV 
      SQMFEVILF TASKRVYAD KLLNLLDPE RKWIKYRLF 
      REHCVCVNG NYIKDLSIL GRDLSKTII IDNSPQAFG 
      YHLNNGIPI ESWFVDRTD SELMKLLPF LEDLVQMKE 
      DVRPHIRNK FKLFSYLPP D
    CDS sequence
    • >TC009000 RA
      atgtggctc cgcagtgaa aaacggaaa aacttccgc 
      gcgatctgc ctcaacaga attcggaaa gtgcgtaaa 
      agtaggatc ggacccaag cagaagaaa accgagacg 
      cccactctc tccgacgaa tgcaaagag aactttcag 
      gcccaggtg gtgcccgag ttcagcccc gcggagggc 
      cccactgcg gagacggag ctgaaatgt ttcgaatac 
      tttgaggcc aacaacgcg gtttcttat gagaaaaca 
      ccaccagac attgtctta aattccgat cttccgaaa 
      gaaattgag tattccaat ttcaacagc gggctcgcg 
      atggcgtgc gaggaaacc ctcaaccat cccgattat 
      gcttcaagc atgcagttt catgtcact gataagaag 
      gcgtgcgat aagtacaat tttgatgtt ttctcggaa 
      aagatctgc gagagcatg tactacgag tacgggtct 
      ctgagggac gattaccag gacgttcag tttgatgtt 
      aacgacttg aataatgtc aacacacag gagttcacc 
      aatatgctg gacgaggag atggcacaa gccaacatc 
      gggaacgtc gtctacgac tacaccaca ctctacccg 
      gtttccata ccagaaggt cacatgatt tcaaacatc 
      acccccgag tccgaagac cgcctcgac aagcaaccg 
      gaacacgta gaggtcgaa gacacatgg gaagctttc 
      gatccttac ttttttatc aaacacctt cctcctcta 
      actttcgac atgcgttcc aaatgtccc gctctccca 
      ttaaaaacg cgatccagt ccagagttc agcttggtt 
      ctggatctg gacgagact ctcgtccat tgcagtttg 
      caggaactc tccgacgca agttttcac tttcctgtc 
      ctcttccaa gactgttcc tacacggtt tatgttcgc 
      acgcgtccc tatttccgc gaatttatg gaaaaggtt 
      tctcaaatg ttcgaagtg atcttgttc acggcctcg 
      aagcgagtt tatgccgat aaattattg aatctgctg 
      gatccggaa aggaagtgg atcaagtat cggctgttt 
      cgggagcat tgcgtgtgt gtcaacggc aactacatt 
      aaggatctt tcgatacta ggcagagat ctttccaag 
      actatcatt attgataat tcaccacaa gcctttggt 
      taccatctt aataacggc atacctatt gaaagttgg 
      ttcgtggac aggaccgat tcggaactt atgaaactg 
      ttaccattt ttagaagat cttgtgcaa atgaaagag 
      gatgttcgg ccacacatt cgcaacaaa ttcaaactc 
      ttcagctac ttacccccc gattaa
    mRNA sequence
    • >TC009000 RA
      atggaaaat tactgaaaa taattaaac cttttgtac 
      tttttttgt tgtagccga atgcgtgaa gaacgactt 
      gaagcgaca ttgctctga catttagcg gtcgcgggg 
      tcaaatggg gttaaaaat gcatgcgct gctgcccct 
      cttcgattt ctgatgtaa aaaataaaa aatcaacga 
      aattcacct gcattttta cctgtctcg tcaagttcc 
      gattgttcg tcggtgagt ggttccccg catgcgcac 
      tccatcact atcaatata aatcgcgtg ggacgccat 
      tttgatata gtgctttgt gtacggcat catcatttt 
      tcccaaaat gaaaacttt cgatacgtt gaaataaca 
      aagtgaaaa gtgtgcgcg ggggtcgca agccagata 
      aatggattg ggaaaatgt ggctccgca gtgaaaaac 
      ggaaaaact tccgcgcga tctgcctca acagaattc 
      ggaaagtgc gtaaaagta ggatcggac ccaagcaga 
      agaaaaccg agacgccca ctctctccg acgaatgca 
      aagagaact ttcaggccc aggtggtgc ccgagttca 
      gccccgcgg agggcccca ctgcggaga cggagctga 
      aatgtttcg aatactttg aggccaaca acgcggttt 
      cttatgaga aaacaccac cagacattg tcttaaatt 
      ccgatcttc cgaaagaaa ttgagtatt ccaatttca 
      acagcgggc tcgcgatgg cgtgcgagg aaaccctca 
      accatcccg attatgctt caagcatgc agtttcatg 
      tcactgata agaaggcgt gcgataagt acaattttg 
      atgttttct cggaaaaga tctgcgaga gcatgtact 
      acgagtacg ggtctctga gggacgatt accaggacg 
      ttcagtttg atgttaacg acttgaata atgtcaaca 
      cacaggagt tcaccaata tgctggacg aggagatgg 
      cacaagcca acatcggga acgtcgtct acgactaca 
      ccacactct acccggttt ccataccag aaggtcaca 
      tgatttcaa acatcaccc ccgagtccg aagaccgcc 
      tcgacaagc aaccggaac acgtagagg tcgaagaca 
      catgggaag ctttcgatc cttactttt ttatcaaac 
      accttcctc ctctaactt tcgacatgc gttccaaat 
      gtcccgctc tcccattaa aaacgcgat ccagtccag 
      agttcagct tggttctgg atctggacg agactctcg 
      tccattgca gtttgcagg aactctccg acgcaagtt 
      ttcactttc ctgtcctct tccaagact gttcctaca 
      cggtttatg ttcgcacgc gtccctatt tccgcgaat 
      ttatggaaa aggtttctc aaatgttcg aagtgatct 
      tgttcacgg cctcgaagc gagtttatg ccgataaat 
      tattgaatc tgctggatc cggaaagga agtggatca 
      agtatcggc tgtttcggg agcattgcg tgtgtgtca 
      acggcaact acattaagg atctttcga tactaggca 
      gagatcttt ccaagacta tcattattg ataattcac 
      cacaagcct ttggttacc atcttaata acggcatac 
      ctattgaaa gttggttcg tggacagga ccgattcgg 
      aacttatga aactgttac catttttag aagatcttg 
      tgcaaatga aagaggatg ttcggccac acattcgca 
      acaaattca aactcttca gctacttac cccccgatt 
      aattggcag ctgtagtcg catagacaa tctcatacc 
      cacgtaata ctctgtttg ttttcgttg agtcccatt 
      gcgttgaag tactgactg acgtctgtt gtttcttta 
      aattatgac gcaactgga ggtgccttt cggaacgtc 
      ttttataca ttattttat aagtaaccg ttttattca 
      actgttgtg ttttgtcgg tgatttaat tgtgcaata 
      tgaaagaaa ttattacaa ttggaggtt ggttttaaa 
      attgagaga acctagatt gtatataat tatgaattg 
      ttggtcagt attttaaga aacaaaagt atattaaca 
      aattagaga gtataaaga gttgaattc ttttattgt 
      accactttg tatataggg aacaaaaac ttaggaaaa 
      ttctcttgc catgtaagg aaaatatat gaccataga 
      atag
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