Status
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Gene information
General information
TC005658 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: 10100270..10103619
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
    TC005658
    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_00904

    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


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    remarks: bad quality of preparation,
    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: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    eclosion delayed (still pupa) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 2 (22 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005658 RA
      MAINFDRWT ILKLLEVAS TIACLAFKR VTDDEASRL 
      FLYLQKLSR EWRILNNVT WDNVGAAVA DTTYGGYLI 
      ITTALFIGR LTGELPTQK RITEFVLLG VGTLLFIIL 
      GSLEFAALD SVPEDLVDN AAVIGTLTL VTAALFLLD 
      MGGPKAKKN NQQSQTPPR SVSKPQESK TTAQQVYEI 
      EKDVENEKK QMKGLEETP KNGHLGNGF KLGDANGRY 
      RDSMYKKIK DEKPKSFDI YGKDMHKDS DTDEPDDIP 
      PKMEEHSPV WSKIRKGQY GKYDILSPS YLYKEKPES 
      EPERPPSSP GDPGYVQYT AQHWGETVQ KTPRHSPTQ 
      V
    CDS sequence
    • >TC005658 RA
      atggctatt aattttgat agatggacc attttgaag 
      ttactggaa gtggcatct accatagct tgtctcgcc 
      tttaaacgc gtaacggac gatgaagcc tcccgcctt 
      ttcctctac ctccaaaaa ctttcacgc gaatggcga 
      attttaaac aacgtgact tgggacaac gtgggggct 
      gctgtcgca gacaccact tatggtggc tacttaata 
      ataaccaca gctttgttc atcgggcga ttaaccgga 
      gaactgccc acccaaaaa aggataact gagttcgtg 
      ctgctcgga gtgggcact ttattgttt attatttta 
      ggtagttta gagtttgcg gcattggac tcggttccg 
      gaagatctg gtggacaat gccgccgtt attgggact 
      ttgactttg gtcactgcc gcgttgttt ctgctagat 
      atgggggga cctaaggcg aagaagaac aatcagcag 
      tcgcaaacc ccgcccagg tctgtcagt aaaccccag 
      gagagtaaa accacagcc cagcaagtg tacgagatt 
      gagaaagat gtggaaaat gagaagaaa cagatgaag 
      gggttggag gagacgccg aagaatggg cacttgggt 
      aatgggttt aagttaggg gatgcgaac gggcggtat 
      agagacagc atgtacaag aagattaaa gacgaaaag 
      ccgaaatcg ttcgatatt tacggcaaa gatatgcac 
      aaggacagc gatactgac gagcctgac gacatccct 
      cccaaaatg gaggagcac tcccctgtt tggagcaaa 
      atcagaaag ggacaatac ggcaaatac gatattttg 
      tccccttct tatctctat aaagagaaa ccggaatcg 
      gaaccggaa agaccgccg agtagtcct ggcgatccg 
      ggatacgtt cagtacacg gcccaacac tggggtgaa 
      accgttcaa aaaacgcca agacatagt ccgacgcag 
      gtgtaa
    mRNA sequence
    • >TC005658 RA
      tgattcaat tcttggcat ttttcctgc aaagaaagc 
      ccggccctg agccacatt aggggcttt tcgacacac 
      aagaagcat tttaatgtt tacaacttg aatttaaat 
      gaatgaatg gaacgtttt aaaataatt gtgttccaa 
      aacaagtgc gttattatt gctttggtg gaggagcta 
      tggtgaggg aatttacaa tcgtccgcg gtgttatgg 
      tgtcagtag ttatctttt agatatgcg cgcaggttg 
      aatgcttgc atatttgtg ctgattcaa aaacaggaa 
      ataaacaac gacaaattc agatcaggg gacaataag 
      gagttatgt tgaaaggct gaagtcatg gctattaat 
      tttgataga tggaccatt ttgaagtta ctggaagtg 
      gcatctacc atagcttgt ctcgccttt aaacgcgta 
      acggacgat gaagcctcc cgccttttc ctctacctc 
      caaaaactt tcacgcgaa tggcgaatt ttaaacaac 
      gtgacttgg gacaacgtg ggggctgct gtcgcagac 
      accacttat ggtggctac ttaataata accacagct 
      ttgttcatc gggcgatta accggagaa ctgcccacc 
      caaaaaagg ataactgag ttcgtgctg ctcggagtg 
      ggcacttta ttgtttatt attttaggt agtttagag 
      tttgcggca ttggactcg gttccggaa gatctggtg 
      gacaatgcc gccgttatt gggactttg actttggtc 
      actgccgcg ttgtttctg ctagatatg gggggacct 
      aaggcgaag aagaacaat cagcagtcg caaaccccg 
      cccaggtct gtcagtaaa ccccaggag agtaaaacc 
      acagcccag caagtgtac gagattgag aaagatgtg 
      gaaaatgag aagaaacag atgaagggg ttggaggag 
      acgccgaag aatgggcac ttgggtaat gggtttaag 
      ttaggggat gcgaacggg cggtataga gacagcatg 
      tacaagaag attaaagac gaaaagccg aaatcgttc 
      gatatttac ggcaaagat atgcacaag gacagcgat 
      actgacgag cctgacgac atccctccc aaaatggag 
      gagcactcc cctgtttgg agcaaaatc agaaaggga 
      caatacggc aaatacgat attttgtcc ccttcttat 
      ctctataaa gagaaaccg gaatcggaa ccggaaaga 
      ccgccgagt agtcctggc gatccggga tacgttcag 
      tacacggcc caacactgg ggtgaaacc gttcaaaaa 
      acgccaaga catagtccg acgcaggtg taaagtcga 
      atgagtgtt ccttgtttt tatttgtgt gaagctggt 
      tgtaatttt tattaatat attcgactt gtttttatt 
      aagttacgt gcgttattt tttcgggtt ggttcaaag 
      gtacaggac tgtgacgag agtagtgca cgtggggat 
      atcattatc taggtttca aggccgtgc cggcgacaa 
      taatagacg atttgtcaa ggaatggac tttttttaa 
      gaaaaactg gccagcttt tcgtgatta tatgccatt 
      ttaatcaag cgaaagttt ggcattttt agggtgggt 
      aatacaata ttaattgtg aa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY