Status
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Gene information
General information
TC009660 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: 3657472..3659929
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
    TC009660
    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
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01594

    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: 70.0% (includes death as pupa, adult)

    adult lethality immediately after eclosion - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    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: 90.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 9 (11 dpi)
    Days post injection


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    larva lethality late (L7) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009660 RA
      MASRRTRIK AIATIPQRR KTLNPPLTT EETPQTAPE 
      VSQNDERNL NVEHDQIGE TAPTPVETS PVTNGGPVF 
      RRKFVKPTV SLNAINRKP REVEEVKNN KIVILNDVI 
      INPAPVINS EQNQLKSPE VREEGSLTF PEPPPSPTK 
      ISRGRIKAV PKLGGFRNS NYSASESED ESRKNYRHR 
      NDSVCSSTS GFQDSIPEC PSPQKPKEF SSVIQRKCR 
      RTEQSRKLA EARRDFYLK FGHKKPDRQ KLTMIDLIF 
      YNPVTNPMS DNKTKRKIS EVTEEEKEV EPENEKIDD 
      PGSDEENEM PAPQIKIGP QGELVVDEQ SLVIENKSL 
      KKNREELEK SELVNGDFE TGYGVYKRA KRSKDWSKR 
      ETLKFYKAL NTIGTDFTL MCELFPRRS RRELKMKFK 
      KEERINKNL VDRAIMQPC GFDFNEFKH EVDMEEKEL 
      EEIEKQKER ERELKKEAK KRKSEQKSK EAEKSCEPK 
      RKKRNLDIM DVLEDSDAD DEVEENEDA VLESLQKPT 
      RSGRVPKIL DRYRAPESP PRLDKAKPG SLIVVAGTG 
      PNGQPVYKV CMVTGEHGR KQIGQDMSS LQKALECKE 
      NGIQDLFTL SAEISECNE TIPAEENNV TIPAEEE
    CDS sequence
    • >TC009660 RA
      atggcatcc agacgaacc cgcattaaa gcaattgcc 
      accatccct caacgtcgc aagaccctc aaccctccc 
      ctaactacc gaagaaacg ccccaaaca gcccccgaa 
      gtgtcacaa aacgacgaa cgtaacctc aatgtcgag 
      catgaccaa ataggggaa actgccccc acgccagtg 
      gaaacctct ccggttacc aacgggggg cctgtcttt 
      cgacgcaaa tttgttaaa ccaacagtg tctttaaat 
      gccatcaat cgcaaacct cgggaggtt gaagaagtg 
      aaaaataac aaaattgtt attttgaat gatgttata 
      ataaaccca gcgccagta attaattcc gagcaaaat 
      cagttaaaa agtcccgaa gtgagagag gaagggtcg 
      ctgactttt ccagagcct cctccaagt cccacgaaa 
      atatcaagg gggcgcatt aaggccgtc cccaaactg 
      gggggcttc cgcaacagc aattacagc gccagcgaa 
      tcggaagac gagagccgc aaaaattac cggcacagg 
      aatgattcc gtttgttcg tcgacttcc ggcttccag 
      gattcaatc cccgagtgc ccttcgccc caaaagccg 
      aaagagttc agttcggtg attcagcgc aagtgtcgc 
      cggaccgaa caaagccga aagttggcg gaagcccgc 
      cgtgatttt tatctaaaa ttcggccac aaaaaacca 
      gaccgtcaa aaactaaca atgattgac ttgattttc 
      tataatccg gtcacgaat ccgatgagt gataacaaa 
      acgaaacga aaaatatca gaagtgact gaagaagag 
      aaggaagtt gagccggaa aatgagaag attgacgat 
      ccgggaagc gacgaagaa aacgaaatg ccagcgcct 
      cagatcaaa atcggaccc cagggcgag cttgtcgtt 
      gatgagcaa agtctagtg attgagaat aaatcgctg 
      aaaaagaat cgagaagaa ctggagaag tctgagctc 
      gttaatggt gattttgag accgggtat ggtgtttat 
      aagcgggcc aaacggtcc aaagactgg agcaaacgc 
      gagacgctc aaattttac aaagccttg aacacaatc 
      ggcaccgac tttacgcta atgtgcgaa ctgttcccg 
      cgaagatca cgacgtgag ttgaaaatg aagttcaag 
      aaagaggaa cggattaac aaaaatttg gtcgaccgt 
      gcgataatg caaccgtgc ggcttcgac ttcaacgaa 
      tttaagcac gaagtggac atggaggaa aaggaactg 
      gaggagatt gaaaagcag aaagaacgc gagcgtgag 
      ttgaagaaa gaagcgaag aagcgcaag tcagaacag 
      aagagtaaa gaggctgag aaaagttgc gagccgaag 
      cggaagaag cgcaatttg gacattatg gacgttttg 
      gaggacagt gacgccgat gatgaggtt gaggaaaat 
      gaagatgcg gttttggag agtttgcag aagccgacg 
      aggtcggga cgggtgccg aaaattctg gacaggtac 
      agggcgcca gagtcgccc ccgaggttg gataaggcc 
      aagcctggg tcgctcatt gtggtcgcg gggacgggg 
      ccgaatgga cagccggtg tacaaggtt tgcatggtt 
      actggagag cacgggagg aagcagata gggcaggat 
      atgtccagt ttgcaaaag gcgctagag tgtaaggag 
      aacgggatt caggatttg ttcacactg tcggcggaa 
      atttccgag tgtaatgag acgatcccg gctgaagaa 
      aataatgtt actataccg gcagaggaa gagtga
    mRNA sequence
    • >TC009660 RA
      cgtggtccc ccaaacaag taactttcc tttcgttta 
      aagttaaat tgccatgtg ttctcttca ccttacaac 
      cgtctccaa cgccatatg gaagtgtct taactgttc 
      cgagtgttc caacttaaa ttcgttacg attacgaac 
      attattatt attattgta aataacttt ttattcaac 
      aatattgca ccacgatgg catccagac gaacccgca 
      ttaaagcaa ttgccacca tccctcaac gtcgcaaga 
      ccctcaacc ctcccctaa ctaccgaag aaacgcccc 
      aaacagccc ccgaagtgt cacaaaacg acgaacgta 
      acctcaatg tcgagcatg accaaatag gggaaactg 
      cccccacgc cagtggaaa cctctccgg ttaccaacg 
      gggggcctg tctttcgac gcaaatttg ttaaaccaa 
      cagtgtctt taaatgcca tcaatcgca aacctcggg 
      aggttgaag aagtgaaaa ataacaaaa ttgttattt 
      tgaatgatg ttataataa acccagcgc cagtaatta 
      attccgagc aaaatcagt taaaaagtc ccgaagtga 
      gagaggaag ggtcgctga cttttccag agcctcctc 
      caagtccca cgaaaatat caagggggc gcattaagg 
      ccgtcccca aactggggg gcttccgca acagcaatt 
      acagcgcca gcgaatcgg aagacgaga gccgcaaaa 
      attaccggc acaggaatg attccgttt gttcgtcga 
      cttccggct tccaggatt caatccccg agtgccctt 
      cgccccaaa agccgaaag agttcagtt cggtgattc 
      agcgcaagt gtcgccgga ccgaacaaa gccgaaagt 
      tggcggaag cccgccgtg atttttatc taaaattcg 
      gccacaaaa aaccagacc gtcaaaaac taacaatga 
      ttgacttga ttttctata atccggtca cgaatccga 
      tgagtgata acaaaacga aacgaaaaa tatcagaag 
      tgactgaag aagagaagg aagttgagc cggaaaatg 
      agaagattg acgatccgg gaagcgacg aagaaaacg 
      aaatgccag cgcctcaga tcaaaatcg gaccccagg 
      gcgagcttg tcgttgatg agcaaagtc tagtgattg 
      agaataaat cgctgaaaa agaatcgag aagaactgg 
      agaagtctg agctcgtta atggtgatt ttgagaccg 
      ggtatggtg tttataagc gggccaaac ggtccaaag 
      actggagca aacgcgaga cgctcaaat tttacaaag 
      ccttgaaca caatcggca ccgacttta cgctaatgt 
      gcgaactgt tcccgcgaa gatcacgac gtgagttga 
      aaatgaagt tcaagaaag aggaacgga ttaacaaaa 
      atttggtcg accgtgcga taatgcaac cgtgcggct 
      tcgacttca acgaattta agcacgaag tggacatgg 
      aggaaaagg aactggagg agattgaaa agcagaaag 
      aacgcgagc gtgagttga agaaagaag cgaagaagc 
      gcaagtcag aacagaaga gtaaagagg ctgagaaaa 
      gttgcgagc cgaagcgga agaagcgca atttggaca 
      ttatggacg ttttggagg acagtgacg ccgatgatg 
      aggttgagg aaaatgaag atgcggttt tggagagtt 
      tgcagaagc cgacgaggt cgggacggg tgccgaaaa 
      ttctggaca ggtacaggg cgccagagt cgcccccga 
      ggttggata aggccaagc ctgggtcgc tcattgtgg 
      tcgcgggga cggggccga atggacagc cggtgtaca 
      aggtttgca tggttactg gagagcacg ggaggaagc 
      agatagggc aggatatgt ccagtttgc aaaaggcgc 
      tagagtgta aggagaacg ggattcagg atttgttca 
      cactgtcgg cggaaattt ccgagtgta atgagacga 
      tcccggctg aagaaaata atgttacta taccggcag 
      aggaagagt gattgtata ttattatgc cataggtta 
      tttatattt actatttta ctgtattta taagttggt 
      aataaagta tagtgagtt ga
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY