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Gene information
General information
TC008917 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: 11874373..11876520
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
    TC008917
    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_01436

    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: < 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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


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


    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008917 RA
      MDKPGDLEA KYQKLATEY SKVRSQATV LKKAVLEEQ 
      AKNNELKDT IKKHEQKIR KHDQEMESL TFRNEQLTK 
      RISVLQQEL QVNSHVKKG KNKSTENII QSDTSVLDE 
      ELQKKILEN AQLVSSMAD KEYELSDCK ERIAWLEKR 
      LDNCEKEYH QKETKYLED IAKLKRAKY EVEKKVEEQ 
      HMDVLNSDV ASNKSSEDQ NEVTFWKEE AERWRSECE 
      VLRSKPQSN ERLTEYYES QLGELLQAK QMAFSETKT 
      LWGENQALY SRLEHLTVV NKEIEGNLE KSNEELLTT 
      IENYKSQLD AMTEHIAAQ NDKITKQCD EIQALKHKI 
      ASKK
    CDS sequence
    • >TC008917 RA
      atggacaaa ccaggcgat ttggaagca aagtaccaa 
      aagctcgcc acagaatac tccaaagtg aggtcgcaa 
      gccacggtc ttgaaaaaa gccgttttg gaggaacag 
      gcgaaaaac aatgaatta aaagacaca attaagaaa 
      cacgagcag aagatacgg aaacatgat caagaaatg 
      gaaagccta actttccga aacgagcag ttgactaag 
      cggatatca gtgttgcaa caagaattg caagtgaac 
      agtcacgtt aaaaaaggg aaaaataaa agcaccgag 
      aacatcatt caatcagac actagtgtc ctggacgag 
      gagttgcag aaaaaaatt ctagaaaat gcccaactt 
      gttagcagt atggctgat aaggagtac gagctgagc 
      gattgcaag gagagaatc gcatggttg gagaaaaga 
      ttagataac tgtgagaaa gaatatcac cagaaggaa 
      acgaaatat ttagaggac attgccaag cttaaaagg 
      gcgaaatat gaagtcgaa aagaaggtc gaggagcag 
      cacatggat gtgctaaat tctgatgtt gcgtctaat 
      aaatccagt gaagaccag aatgaggtc actttttgg 
      aaagaggaa gctgagagg tggcgctct gaatgcgaa 
      gtcctgcgt tccaaacca caatcaaac gaacggttg 
      actgaatat tacgaatct caattgggc gaattgttg 
      caagccaag caaatggcc ttctcagaa accaaaact 
      ttgtggggt gaaaatcaa gccttatat tcaagatta 
      gaacatctg actgtggta aacaaggaa atagaaggc 
      aatctagag aagagcaat gaagagttg cttaccact 
      atagaaaat tacaagagt cagcttgat gcaatgact 
      gaacatata gccgcccaa aatgataag atcacgaaa 
      cagtgcgac gaaatccaa gcactcaaa cataaaatt 
      gcgagcaaa aagtaa
    mRNA sequence
    • >TC008917 RA
      aacctattt ccttcatgc tctgtcgtt ccacctgta 
      taatttaat actatctac acacattaa gcacccaaa 
      tgggtttta attcgcaaa cacatgtct tttctacct 
      tcagtgtca aaccaaaac gtcagtagt gtcattcaa 
      ttgtcaaaa taaactaac ctaagatat gtgattaga 
      aaataaata attgggccg atttatgta ataattcgc 
      ctagaaatg gacaaacca ggcgatttg gaagcaaag 
      taccaaaag ctcgccaca gaatactcc aaagtgagg 
      tcgcaagcc acggtcttg aaaaaagcc gttttggag 
      gaacaggcg aaaaacaat gaattaaaa gacacaatt 
      aagaaacac gagcagaag atacggaaa catgatcaa 
      gaaatggaa agcctaact ttccgaaac gagcagttg 
      actaagcgg atatcagtg ttgcaacaa gaattgcaa 
      gtgaacagt cacgttaaa aaagggaaa aataaaagc 
      accgagaac atcattcaa tcagacact agtgtcctg 
      gacgaggag ttgcagaaa aaaattcta gaaaatgcc 
      caacttgtt agcagtatg gctgataag gagtacgag 
      ctgagcgat tgcaaggag agaatcgca tggttggag 
      aaaagatta gataactgt gagaaagaa tatcaccag 
      aaggaaacg aaatattta gaggacatt gccaagctt 
      aaaagggcg aaatatgaa gtcgaaaag aaggtcgag 
      gagcagcac atggatgtg ctaaattct gatgttgcg 
      tctaataaa tccagtgaa gaccagaat gaggtcact 
      ttttggaaa gaggaagct gagaggtgg cgctctgaa 
      tgcgaagtc ctgcgttcc aaaccacaa tcaaacgaa 
      cggttgact gaatattac gaatctcaa ttgggcgaa 
      ttgttgcaa gccaagcaa atggccttc tcagaaacc 
      aaaactttg tggggtgaa aatcaagcc ttatattca 
      agattagaa catctgact gtggtaaac aaggaaata 
      gaaggcaat ctagagaag agcaatgaa gagttgctt 
      accactata gaaaattac aagagtcag cttgatgca 
      atgactgaa catatagcc gcccaaaat gataagatc 
      acgaaacag tgcgacgaa atccaagca ctcaaacat 
      aaaattgcg agcaaaaag taaacattc ctttaattt 
      aataattta tttacatta tttactctg tataaatta 
      tgcggttt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY