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Gene information
General information
TC009327 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: 419189..421025
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
    TC009327
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_06269

    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)

    adult lethality - Number of animals showing the phenotype: 2 (9 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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009327 RA
      MFGDNCGDD IQNVVLDIE EDVCRQTSD TEGEMLPLD 
      QIEDNNVNI TDLDTLSVS DFLNDLDSQ SSHNTSPVN 
      VDSDEIDED IESQNKREI ALAAVLENL HISCKFKFV 
      LTKKVYFKY KRRLVSMVL VDRIQIELG AQEPWPKDV 
      KLFQPYEIE QILLPDNAN CLAVQAFLK MCNLEFQVE 
      PRANAEAMS PSGKVPFIK AGAFVVSEL EPIVQFVNN 
      KGITLTDKL DPEMKSDMR AYMSLVHNV MEVAELYIC 
      WCDKETYNE VTSVRYGSI YPWPLNHIQ NRVKRAQVI 
      KKLKVLGWY QKTMSEVFQ EVENCCQAL TDRLEDKDF 
      FFGDKPTEL DALVFGHLF TILTTPLPN SHIANIVRN 
      YPILINLIQ RIERDYFKR ETKH
    CDS sequence
    • >TC009327 RA
      atgtttggt gataattgt ggcgacgat attcaaaac 
      gttgtttta gatattgaa gaagatgtg tgccgtcaa 
      acttcggac actgaaggc gaaatgttg cctttggat 
      caaattgag gataataac gttaatatc actgatttg 
      gacacatta tccgtgtct gattttcta aatgatttg 
      gactcccaa agttcgcac aacacttca ccagtcaat 
      gttgattca gacgaaatt gacgaagac atcgagagc 
      caaaataaa agggaaatt gcattagct gcagttttg 
      gaaaacttg cacatatcc tgtaagttc aaatttgtg 
      ttaacaaaa aaggtttat ttcaagtat aaacgtaga 
      ttagttagt atggtttta gtcgatcgt atccaaata 
      gaattaggg gcccaggag ccttggccc aaagacgtc 
      aaactcttc caaccctac gaaatcgag caaattcta 
      ttgcccgac aatgccaac tgtttggca gtgcaagct 
      ttcctcaaa atgtgcaat ttggagttt caagtggag 
      ccacgagca aatgccgaa gccatgtcc ccctcaggc 
      aaagtcccc ttcatcaaa gctggggcc tttgtcgta 
      tctgaactc gaaccgatc gtacagttt gttaacaat 
      aagggaatc accctaact gataaactt gaccccgaa 
      atgaaatct gacatgagg gcctacatg agtttggtc 
      cacaacgtt atggaagtt gcagaattg tacatttgt 
      tggtgtgac aaagagact tataatgaa gtcactagt 
      gtgcgatat gggtccatt tatccatgg cctttaaac 
      catattcaa aatagggtt aagagggca caagtcata 
      aaaaaattg aaggttttg gggtggtat caaaaaaca 
      atgtcggag gtgttccaa gaggtggag aattgttgt 
      caggctctc actgacagg cttgaggac aaagatttt 
      ttctttggt gacaaacca acagagctt gatgcttta 
      gtgtttggt caccttttt accattttg acgactccc 
      ttgccaaac agccacatt gcaaacatc gtcagaaat 
      tatccaatt cttataaat ttaatccaa aggattgaa 
      agggactac tttaaacga gagacgaaa cactag
    mRNA sequence
    • >TC009327 RA
      aaaataatg tttggtgat aattgtggc gacgatatt 
      caaaacgtt gttttagat attgaagaa gatgtgtgc 
      cgtcaaact tcggacact gaaggcgaa atgttgcct 
      ttggatcaa attgaggat aataacgtt aatatcact 
      gatttggac acattatcc gtgtctgat tttctaaat 
      gatttggac tcccaaagt tcgcacaac acttcacca 
      gtcaatgtt gattcagac gaaattgac gaagacatc 
      gagagccaa aataaaagg gaaattgca ttagctgca 
      gttttggaa aacttgcac atatcctgt aagttcaaa 
      tttgtgtta acaaaaaag gtttatttc aagtataaa 
      cgtagatta gttagtatg gttttagtc gatcgtatc 
      caaatagaa ttaggggcc caggagcct tggcccaaa 
      gacgtcaaa ctcttccaa ccctacgaa atcgagcaa 
      attctattg cccgacaat gccaactgt ttggcagtg 
      caagctttc ctcaaaatg tgcaatttg gagtttcaa 
      gtggagcca cgagcaaat gccgaagcc atgtccccc 
      tcaggcaaa gtccccttc atcaaagct ggggccttt 
      gtcgtatct gaactcgaa ccgatcgta cagtttgtt 
      aacaataag ggaatcacc ctaactgat aaacttgac 
      cccgaaatg aaatctgac atgagggcc tacatgagt 
      ttggtccac aacgttatg gaagttgca gaattgtac 
      atttgttgg tgtgacaaa gagacttat aatgaagtc 
      actagtgtg cgatatggg tccatttat ccatggcct 
      ttaaaccat attcaaaat agggttaag agggcacaa 
      gtcataaaa aaattgaag gttttgggg tggtatcaa 
      aaaacaatg tcggaggtg ttccaagag gtggagaat 
      tgttgtcag gctctcact gacaggctt gaggacaaa 
      gattttttc tttggtgac aaaccaaca gagcttgat 
      gctttagtg tttggtcac ctttttacc attttgacg 
      actcccttg ccaaacagc cacattgca aacatcgtc 
      agaaattat ccaattctt ataaattta atccaaagg 
      attgaaagg gactacttt aaacgagag acgaaacac 
      tagtcgtgt aaataaaag acaacagtt tattacttt 
      tatatttat ttcctgtta aattgagat aaatgtaga 
      ttaaagcac ctttcagtt a
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY