Status
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Gene information
General information
TC009654 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: 3623098..3624418
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
    TC009654
    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_04673

    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: 30.0% (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: 3 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009654 RA
      MESEVKSWL EKILKNEHL SHVKIVGGS EKGDGYMGD 
      IVFVEATAG KPHHLVLKC AKRSALLRE KSPVKEAFL 
      NEIFCYDSL FPEFSRFQS ERKITDPFD NVPKCYGTL 
      VSGEMEILA LENLKNLGY VLWDRRTAL TRNHIDLIV 
      ENYGKLHAI SIAMRDQEP QSFENLASK LGNVLKLFD 
      QLTNMVGSF VVGIEDLYQ LFKGEDFAP QWRGLKGKL 
      RAFFTDLWD NVDGMRVIC HGDCWNNNF MHYHRDGVP 
      VNFAMIDWQ LAFLSSPIV DLSYFLFSC IAEEDIEDM 
      DTILRLYHD SLTSHLEKL GSSRDLYPF GQFLDEWKR 
      YSKMGVTFS MIIHRTALL DAENVPDLV KSAEGGQDV 
      LEDFILCPI SDAEAYKKR MSYIIKHAV KNDLV
    CDS sequence
    • >TC009654 RA
      atggaaagt gaggtgaag tcatggctg gaaaaaatc 
      ctgaaaaac gagcacctc tcgcacgtg aaaatcgtg 
      ggaggttcg gaaaagggc gacggctac atgggcgac 
      atagttttc gtggaagcg acggccgga aaaccccac 
      catctggtg ttaaaatgt gccaaacgg agcgcgtta 
      ctgcgcgaa aaatcgccg gttaaggag gcgtttctg 
      aacgagatt ttctgctac gactcgctt ttccccgaa 
      ttttcgcgc ttccagagc gagcggaaa atcacagac 
      ccgttcgat aacgtgccc aagtgttac ggtactctg 
      gtgagcggt gaaatggaa atcctggct ttggaaaat 
      ttgaaaaat ctgggatac gtgctgtgg gaccgcaga 
      acggcgctc acccgaaac cacatcgat ttgattgtg 
      gaaaactac gggaaattg cacgcgatt tccatcgcc 
      atgagggac caagagcca caaagcttc gaaaatttg 
      gcctcgaaa ctgggcaat gtgttgaag ttgttcgac 
      cagttgaca aacatggtt gggagtttt gttgttggg 
      attgaagat ttgtaccaa ttgttcaaa ggggaggat 
      tttgcccca cagtggagg ggcttgaag gggaaactg 
      cgggctttt ttcaccgat ttgtgggac aatgttgac 
      ggcatgaga gtgatatgc catggggat tgttggaat 
      aataatttc atgcactat caccgtgac ggagtgcca 
      gtaaatttt gccatgatc gactggcag ttggctttc 
      ctcagttcg ccaattgtt gacttgtct tatttcctc 
      ttcagttgt atcgcagag gaagatatt gaagatatg 
      gacacgatt ttgaggctc tatcacgat tctttaaca 
      agtcatttg gaaaaatta gggagtagt cgcgatttg 
      tatcctttt ggccagttt ctggacgaa tggaagagg 
      tacagtaag atgggcgtc actttttca atgatcatt 
      catcggact gctcttttg gatgcggaa aatgttcca 
      gatttggtc aaatcggcc gaaggtgga caagatgtt 
      ttagaagat tttattctg tgtccgatt tcagacgcc 
      gaagcttac aagaaacga atgtcttac attataaaa 
      catgcagta aaaaacgat ttagtatag
    mRNA sequence
    • >TC009654 RA
      tcgctcaaa atggaaagt gaggtgaag tcatggctg 
      gaaaaaatc ctgaaaaac gagcacctc tcgcacgtg 
      aaaatcgtg ggaggttcg gaaaagggc gacggctac 
      atgggcgac atagttttc gtggaagcg acggccgga 
      aaaccccac catctggtg ttaaaatgt gccaaacgg 
      agcgcgtta ctgcgcgaa aaatcgccg gttaaggag 
      gcgtttctg aacgagatt ttctgctac gactcgctt 
      ttccccgaa ttttcgcgc ttccagagc gagcggaaa 
      atcacagac ccgttcgat aacgtgccc aagtgttac 
      ggtactctg gtgagcggt gaaatggaa atcctggct 
      ttggaaaat ttgaaaaat ctgggatac gtgctgtgg 
      gaccgcaga acggcgctc acccgaaac cacatcgat 
      ttgattgtg gaaaactac gggaaattg cacgcgatt 
      tccatcgcc atgagggac caagagcca caaagcttc 
      gaaaatttg gcctcgaaa ctgggcaat gtgttgaag 
      ttgttcgac cagttgaca aacatggtt gggagtttt 
      gttgttggg attgaagat ttgtaccaa ttgttcaaa 
      ggggaggat tttgcccca cagtggagg ggcttgaag 
      gggaaactg cgggctttt ttcaccgat ttgtgggac 
      aatgttgac ggcatgaga gtgatatgc catggggat 
      tgttggaat aataatttc atgcactat caccgtgac 
      ggagtgcca gtaaatttt gccatgatc gactggcag 
      ttggctttc ctcagttcg ccaattgtt gacttgtct 
      tatttcctc ttcagttgt atcgcagag gaagatatt 
      gaagatatg gacacgatt ttgaggctc tatcacgat 
      tctttaaca agtcatttg gaaaaatta gggagtagt 
      cgcgatttg tatcctttt ggccagttt ctggacgaa 
      tggaagagg tacagtaag atgggcgtc actttttca 
      atgatcatt catcggact gctcttttg gatgcggaa 
      aatgttcca gatttggtc aaatcggcc gaaggtgga 
      caagatgtt ttagaagat tttattctg tgtccgatt 
      tcagacgcc gaagcttac aagaaacga atgtcttac 
      attataaaa catgcagta aaaaacgat ttagtatag 
      atttgagtt ttattattc agccatgac ggacgggac 
      ataattcta ttttatttt taaaacaat aataatagt 
      taaactgat ga
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY