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Gene information
General information
TC009325 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: 409755..411628
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
    TC009325
    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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    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_04619

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    Fertility
    ovary without detectable defects - Number of animals showing the phenotype: 1
    mature egg not present - Number of animals showing the phenotype: 3

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 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)

    adult lethality - Number of animals showing the phenotype: 4 (41 dpi)
    Days post injection


    Fertility
    fertility after larval injection decreased (no living offspring) -
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009325 RA
      MKCFIRYEK YCDFPIENL PYGVFSTKD DPTHRIGVA 
      IGDQILDLR QISHLFVGP ELKNNQDVF KQKTLNKFM 
      GLTKKAWKE ARDTIQNLL SVDNQTLQT PDMKKKAFV 
      SQYEATMHL PAEIGDYTD FFSSIHHAT NTGIMFRGK 
      ENPLLPNWK YLPVAYHGR ASSVVVSGT PIRRPNGQT 
      LPVEGAPPV FGTCKLMDF ELEMAFFVG GPSNELGKP 
      IPIEKTDQH IFGFVLMND WSARDIQKW EYVPLGPFT 
      AKNLGTTIS PWVVTTFAL EPFKVDNYS QNPEPFPYL 
      KHDDKFNFD IGLQVDITP KGLNVSTTV CRSNYKYLY 
      WTAKQQLAH HTITGCNVR PGDLMASGT ISGETSDSF 
      GSLLELSWR GTKPISLLD GSQRKFLQD GDTVTIKGM 
      CEGDGYNIG FGECVGSLL PAIDM
    CDS sequence
    • >TC009325 RA
      atgaagtgc ttcataaga tacgaaaaa tactgcgat 
      tttcccatt gaaaatctg ccatatggg gtcttttcc 
      accaaagac gatcccaca cacaggatt ggggtagca 
      attggggac caaatcctc gatttgaga caaatatcc 
      cacctcttt gtgggacca gaactgaaa aacaatcaa 
      gatgtgttc aaacagaaa acgttaaat aaattcatg 
      ggattgacg aaaaaagca tggaaagag gctcgtgat 
      acgattcaa aatctactt tcggtagac aatcaaaca 
      ttacagact cctgacatg aaaaaaaag gcttttgtg 
      tcacaatac gaggccaca atgcacctc cctgccgaa 
      atcggggat tatactgac tttttctcc tcaattcat 
      cacgcaaca aatacgggt ataatgttc agaggaaaa 
      gaaaatccc ttgctcccc aattggaaa tacttaccg 
      gtggcttac cacggtcga gcaagctct gtcgtggtc 
      tcggggacc ccaatcagg cgccccaac ggacaaaca 
      ctcccagtt gaaggcgca cctcccgtt tttgggact 
      tgcaaactg atggatttc gaactagag atggcgttt 
      ttcgtcggt gggccgtca aacgagtta ggcaaaccc 
      attccgatt gaaaaaacc gaccaacat attttcggg 
      tttgtgcta atgaatgac tggagcgca agggatatt 
      caaaagtgg gagtacgtg cctttgggg cccttcact 
      gccaaaaat ctagggacg actatttcg ccctgggtt 
      gttaccact tttgccctt gagcccttc aaagtggac 
      aactactcg caaaatccg gagcctttc ccctactta 
      aaacacgac gataagttc aatttcgat atcgggctg 
      caagtggac atcacccca aaggggctg aacgtgtca 
      accacagtt tgccgttct aattacaaa tatttatac 
      tggacggca aagcaacaa ctggcccat cacaccatc 
      accgggtgc aatgtcaga cctggtgat ttgatggca 
      agtggaaca atcagtggc gagacttca gattccttc 
      ggttcgctc ttggagctg tcctggagg ggcaccaag 
      cccatttcg ctccttgac ggcagccag aggaagttc 
      ctccaagac ggtgacacg gtcaccatt aagggaatg 
      tgtgaaggc gatggttat aacatcggt ttcggcgaa 
      tgcgtcggt tcgttactg ccagctatc gacatgtaa
    mRNA sequence
    • >TC009325 RA
      accttggct aacaaaccg ctcagtcgt tcgctgtcc 
      ccatcacaa tgaagtgct tcataagat acgaaaaat 
      actgcgatt ttcccattg aaaatctgc catatgggg 
      tcttttcca ccaaagacg atcccacac acaggattg 
      gggtagcaa ttggggacc aaatcctcg atttgagac 
      aaatatccc acctctttg tgggaccag aactgaaaa 
      acaatcaag atgtgttca aacagaaaa cgttaaata 
      aattcatgg gattgacga aaaaagcat ggaaagagg 
      ctcgtgata cgattcaaa atctacttt cggtagaca 
      atcaaacat tacagactc ctgacatga aaaaaaagg 
      cttttgtgt cacaatacg aggccacaa tgcacctcc 
      ctgccgaaa tcggggatt atactgact ttttctcct 
      caattcatc acgcaacaa atacgggta taatgttca 
      gaggaaaag aaaatccct tgctcccca attggaaat 
      acttaccgg tggcttacc acggtcgag caagctctg 
      tcgtggtct cggggaccc caatcaggc gccccaacg 
      gacaaacac tcccagttg aaggcgcac ctcccgttt 
      ttgggactt gcaaactga tggatttcg aactagaga 
      tggcgtttt tcgtcggtg ggccgtcaa acgagttag 
      gcaaaccca ttccgattg aaaaaaccg accaacata 
      ttttcgggt ttgtgctaa tgaatgact ggagcgcaa 
      gggatattc aaaagtggg agtacgtgc ctttggggc 
      ccttcactg ccaaaaatc tagggacga ctatttcgc 
      cctgggttg ttaccactt ttgcccttg agcccttca 
      aagtggaca actactcgc aaaatccgg agcctttcc 
      cctacttaa aacacgacg ataagttca atttcgata 
      tcgggctgc aagtggaca tcaccccaa aggggctga 
      acgtgtcaa ccacagttt gccgttcta attacaaat 
      atttatact ggacggcaa agcaacaac tggcccatc 
      acaccatca ccgggtgca atgtcagac ctggtgatt 
      tgatggcaa gtggaacaa tcagtggcg agacttcag 
      attccttcg gttcgctct tggagctgt cctggaggg 
      gcaccaagc ccatttcgc tccttgacg gcagccaga 
      ggaagttcc tccaagacg gtgacacgg tcaccatta 
      agggaatgt gtgaaggcg atggttata acatcggtt 
      tcggcgaat gcgtcggtt cgttactgc cagctatcg 
      acatgtaat tttttccaa tacaaaaaa taaagtttg 
      aagttaatt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY