Status
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Gene information
General information
TC009042 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: 8178845..8181138
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
    TC009042
    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_01463

    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: 20.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009042 RA
      MPQYKVKVK WGKESYPDI EVNTDESPM LFKAQLFAL 
      TGVQPERQK VMIKGVTLK DADWDNFKL KDGVTVLLM 
      GSKEEDVPK EPVEKTVFV EDMNESELA TALELPAGL 
      TNLGNTCYM NATVQCLKS VPELREALQ AYQGDVTDA 
      RGVIPAQSI TAALRDLYS SMDKGNNVP PIVLLQMLH 
      LAFPRFAEK NEHGGFTQQ DANECWTEL IRMLQQKLP 
      AKQNGGNAA EKFKSLVDQ FFGGTFEVE LKCTETEDE 
      PVTKNKETF LQLSCFISQ DVRYMHSGL RSKMQEQIT 
      KKSSTLDRD AVYIKTSKI SRLPAYLTI QFVRFYYKE 
      KESINAKIL KDVKFPIDF DAFDLCTPE LQEKLAPMR 
      AKFKELEDA QVEAASKEK QKSIGDGKA NEADKKYAP 
      YWFEDDLGS NNSGYYTLQ AVLTHRGRS SSSGHYVGW 
      VRQSGDKWI KCDDDNVSP VTTEDILKL SGGGDWHCA 
      YVLLYGPRL LEIPSESEE KMVTEN
    CDS sequence
    • >TC009042 RA
      atgccacaa tacaaggtt aaagtgaaa tggggtaag 
      gagtcttac cccgatatt gaagtgaac acggatgaa 
      tctccgatg ctgtttaag gcgcagttg tttgccctc 
      actggagtg caacccgaa agacagaaa gtcatgata 
      aaaggggtg acgttgaaa gacgccgat tgggataac 
      tttaagttg aaggatggg gttactgtg ttattaatg 
      gggagtaaa gaagaagac gtgccaaaa gaaccggtc 
      gaaaaaacc gtttttgtg gaagatatg aatgagagc 
      gaattggct actgccttg gagcttcct gccggttta 
      acaaatcta ggaaacacg tgttacatg aatgccaca 
      gttcagtgt ttgaaatca gttcccgaa ctgcgagaa 
      gcccttcag gcctatcaa ggagacgtg accgacgca 
      aggggcgta atccccgca cagtcaatt acggcagct 
      ttgcgcgat ctttactcc tccatggat aaagggaac 
      aacgtgccc cccatagtc cttctccaa atgctccac 
      ttggcattc cccagattc gcggaaaag aacgaacat 
      ggcggtttt acgcaacag gacgctaac gaatgttgg 
      actgagtta attagaatg ttgcaacag aaattgccg 
      gcgaaacaa aacggcgga aatgctgcc gaaaagttt 
      aaatcgttg gttgatcaa ttttttggc gggactttt 
      gaagttgaa ttgaaatgc acggaaacg gaagatgag 
      ccggtcact aaaaataag gagacgttt ctgcagctg 
      agttgtttt atttcgcaa gatgtgcgc tatatgcat 
      tcaggcttg agatcgaaa atgcaggag caaataact 
      aaaaaatcg tcaaccctg gaccgggat gccgtttat 
      attaaaaca tctaagata agcagattg ccggcttat 
      ctcaccatc cagttcgtt cgattttac tacaaggag 
      aaggaatca ataaacgcc aaaattctg aaagatgtt 
      aaattccca atagatttt gacgctttc gatttatgt 
      actcccgaa ttgcaggaa aagttagcc ccgatgagg 
      gcaaagttc aaggagttg gaggatgcg caagtggaa 
      gcggcgtca aaagagaaa caaaaaagc ataggcgac 
      ggtaaagcg aacgaagcg gataagaag tacgccccc 
      tattggttc gaggatgat ttggggagt aacaacagc 
      ggatattac acccttcag gctgtgttg acccatcgg 
      gggcggtct tcgtccagt ggtcactac gtggggtgg 
      gtgcgccag tctggcgat aagtggata aagtgcgat 
      gatgataat gtttcgcct gtgactact gaggatatt 
      ttgaagctg tctggcgga ggtgattgg cactgcgct 
      tacgtcctt ttgtacggg cctagactg ttagaaatc 
      cccagcgaa agtgaggaa aaaatggtg acagaaaat 
      taa
    mRNA sequence
    • >TC009042 RA
      aaactgagg tttttaacc cagcgatta cgtaccgct 
      gtttcgctt tagcacacg ttgtttttt gcttctctc 
      tctcgtttt gcaatgttt gacggagaa gtcactaga 
      cccagtgtt gccattaaa ttttcttgc ttgtcatcc 
      ataatcaag catttttgc ggttccggc aaagcctct 
      gttaaataa tctacacgt attttcttg tccgttttt 
      acttttata ttgagattt agtgttaga aaacgatgc 
      cacaataca aggttaaag tgaaatggg gtaaggagt 
      cttaccccg atattgaag tgaacacgg atgaatctc 
      cgatgctgt ttaaggcgc agttgtttg ccctcactg 
      gagtgcaac ccgaaagac agaaagtca tgataaaag 
      gggtgacgt tgaaagacg ccgattggg ataacttta 
      agttgaagg atggggtta ctgtgttat taatgggga 
      gtaaagaag aagacgtgc caaaagaac cggtcgaaa 
      aaaccgttt ttgtggaag atatgaatg agagcgaat 
      tggctactg ccttggagc ttcctgccg gtttaacaa 
      atctaggaa acacgtgtt acatgaatg ccacagttc 
      agtgtttga aatcagttc ccgaactgc gagaagccc 
      ttcaggcct atcaaggag acgtgaccg acgcaaggg 
      gcgtaatcc ccgcacagt caattacgg cagctttgc 
      gcgatcttt actcctcca tggataaag ggaacaacg 
      tgcccccca tagtccttc tccaaatgc tccacttgg 
      cattcccca gattcgcgg aaaagaacg aacatggcg 
      gttttacgc aacaggacg ctaacgaat gttggactg 
      agttaatta gaatgttgc aacagaaat tgccggcga 
      aacaaaacg gcggaaatg ctgccgaaa agtttaaat 
      cgttggttg atcaatttt ttggcggga cttttgaag 
      ttgaattga aatgcacgg aaacggaag atgagccgg 
      tcactaaaa ataaggaga cgtttctgc agctgagtt 
      gttttattt cgcaagatg tgcgctata tgcattcag 
      gcttgagat cgaaaatgc aggagcaaa taactaaaa 
      aatcgtcaa ccctggacc gggatgccg tttatatta 
      aaacatcta agataagca gattgccgg cttatctca 
      ccatccagt tcgttcgat tttactaca aggagaagg 
      aatcaataa acgccaaaa ttctgaaag atgttaaat 
      tcccaatag attttgacg ctttcgatt tatgtactc 
      ccgaattgc aggaaaagt tagccccga tgagggcaa 
      agttcaagg agttggagg atgcgcaag tggaagcgg 
      cgtcaaaag agaaacaaa aaagcatag gcgacggta 
      aagcgaacg aagcggata agaagtacg ccccctatt 
      ggttcgagg atgatttgg ggagtaaca acagcggat 
      attacaccc ttcaggctg tgttgaccc atcgggggc 
      ggtcttcgt ccagtggtc actacgtgg ggtgggtgc 
      gccagtctg gcgataagt ggataaagt gcgatgatg 
      ataatgttt cgcctgtga ctactgagg atattttga 
      agctgtctg gcggaggtg attggcact gcgcttacg 
      tccttttgt acgggccta gactgttag aaatcccca 
      gcgaaagtg aggaaaaaa tggtgacag aaaattaac 
      tgagcttta aattatgta ataatcttg tataaaact 
      gaaaaacgt ttcttaaaa taaacaagc gattaatat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY