Status
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Gene information
General information
TC006482 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_007423.3: 10415680..10417120
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
    TC006482
    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_07519

    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: 1 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (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: % (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: % (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006482 RA
      MGNDCEISQ VKASQTAEQ QSNCVLPDS LDILTPFSR 
      HIFTGIYVA VSVVSLVGN CAAIYSITK RKYRFVQKT 
      CIISLAISD ILSTVVIGT NNLETFSHE LLVWTLGSF 
      LCSFIPMCQ MVGITASST ALVFIAMDR YRNVVHALS 
      KRWNPPPLH CLTVTVILW LISFGISYP LYDFFIQED 
      VTIVYVTGT ENFTFVDAK VCVSFDKDN MKTYYIVMV 
      ILIFLPLLM IFLWFYYNI ASLVWKHRK PVTSSFQNE 
      SSAVENSSS HLEVKMKSV KNVGKNRNI RVERKIRTF 
      KVLVTLMLV FIICRLPYF TVFILKLSL TDDYGLWTW 
      YLNYAFMAL HILNCCLNP LLYTFLNQT LTVWIKVKK 
      GIKDFTWEV CCFCFSNAE FDAFERENP FIINDYNRN 
      GRNSKVKFE ENVQEIEAK Y
    CDS sequence
    • >TC006482 RA
      atgggcaac gactgcgag atcagccaa gtcaaagcg 
      tcacagacc gcagaacaa cagagcaat tgcgtcctc 
      ccggactct cttgatatt ttaacgcct ttctcaaga 
      cacattttt accgggatt tatgtcgca gtttcagtg 
      gtgtcgctt gtgggcaac tgtgcggcg atttattcc 
      atcactaag aggaagtat cggttcgtc caaaaaacc 
      tgcatcatt tcacttgcc atttcggat attctgagc 
      actgttgtc atcgggacc aacaatttg gaaacattc 
      tcgcacgag ttgctcgtt tggactttg ggatcattt 
      ctctgctct tttatcccg atgtgccaa atggtcgga 
      atcactgca agctccaca gctctggtg ttcatcgcc 
      atggaccgc tacagaaac gtggtccac gccctaagc 
      aaacgctgg aaccctccg ccactgcac tgtctcaca 
      gtaacagtc attttgtgg cttattagt ttcggaatc 
      tcgtaccca ctgtacgat ttcttcatt caagaagac 
      gtcacgatt gtgtatgtc actggtacc gaaaatttc 
      actttcgtc gacgctaaa gtgtgcgtc agcttcgat 
      aaagacaac atgaagacg tactacatt gtaatggtg 
      attctgatt tttttgccg ctactgatg attttcttg 
      tggttttac tacaatatc gcgtctctc gtttggaaa 
      caccgaaaa ccggtcacg agctcgttt cagaatgaa 
      tcctccgct gtggaaaac tcctcctcg catcttgaa 
      gtcaaaatg aagagtgtt aagaacgtg gggaaaaat 
      cgcaacata agagttgaa cgcaagatt cgcacgttt 
      aaagttctg gtgacctta atgctggtt tttatcatt 
      tgccgattg ccgtatttt actgttttc attctgaaa 
      ttgtcactg actgacgat tatggtctg tggacttgg 
      tatctgaat tatgctttc atggctttg catattctg 
      aattgttgt ctgaatccg ctgttgtac actttcttg 
      aaccagacg ttgacagtt tggattaaa gtgaaaaag 
      ggaatcaaa gattttaca tgggaagtt tgttgcttt 
      tgcttttcc aatgccgaa tttgacgcg tttgaaagg 
      gaaaatcca tttataatc aatgattat aacaggaac 
      gggcgaaat tccaaagtt aaatttgaa gaaaatgtg 
      caagaaatc gaagccaaa tattaa
    mRNA sequence
    • >TC006482 RA
      gggcgcaag ccaattaat ttttgggtc agttgatca 
      aaccttgtc caacaatgg gcaacgact gcgagatca 
      gccaagtca aagcgtcac agaccgcag aacaacaga 
      gcaattgcg tcctcccgg actctcttg atattttaa 
      cgcctttct caagacaca tttttaccg ggatttatg 
      tcgcagttt cagtggtgt cgcttgtgg gcaactgtg 
      cggcgattt attccatca ctaagagga agtatcggt 
      tcgtccaaa aaacctgca tcatttcac ttgccattt 
      cggatattc tgagcactg ttgtcatcg ggaccaaca 
      atttggaaa cattctcgc acgagttgc tcgtttgga 
      ctttgggat catttctct gctctttta tcccgatgt 
      gccaaatgg tcggaatca ctgcaagct ccacagctc 
      tggtgttca tcgccatgg accgctaca gaaacgtgg 
      tccacgccc taagcaaac gctggaacc ctccgccac 
      tgcactgtc tcacagtaa cagtcattt tgtggctta 
      ttagtttcg gaatctcgt acccactgt acgatttct 
      tcattcaag aagacgtca cgattgtgt atgtcactg 
      gtaccgaaa atttcactt tcgtcgacg ctaaagtgt 
      gcgtcagct tcgataaag acaacatga agacgtact 
      acattgtaa tggtgattc tgatttttt tgccgctac 
      tgatgattt tcttgtggt tttactaca atatcgcgt 
      ctctcgttt ggaaacacc gaaaaccgg tcacgagct 
      cgtttcaga atgaatcct ccgctgtgg aaaactcct 
      cctcgcatc ttgaagtca aaatgaaga gtgttaaga 
      acgtgggga aaaatcgca acataagag ttgaacgca 
      agattcgca cgtttaaag ttctggtga ccttaatgc 
      tggttttta tcatttgcc gattgccgt attttactg 
      ttttcattc tgaaattgt cactgactg acgattatg 
      gtctgtgga cttggtatc tgaattatg ctttcatgg 
      ctttgcata ttctgaatt gttgtctga atccgctgt 
      tgtacactt tcttgaacc agacgttga cagtttgga 
      ttaaagtga aaaagggaa tcaaagatt ttacatggg 
      aagtttgtt gcttttgct tttccaatg ccgaatttg 
      acgcgtttg aaagggaaa atccattta taatcaatg 
      attataaca ggaacgggc gaaattcca aagttaaat 
      ttgaagaaa atgtgcaag aaatcgaag ccaaatatt 
      aatgcagct atttcattt tgattaatg attaagaaa 
      agtatcgaa caatt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY