Status
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Gene information
General information
TC013565 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_007416.3: 3636350..3638514
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
    TC013565
    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
    {{ goGene }}
    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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    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_02158

    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)

    pupa eclosion not fulfilled (died as pupa) - 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: < 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)

    larva lethality - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC013565 RA
      MNREMRQSH RTPKKTPIT DDYDITKTV LGLGINGKV 
      VECFSKATK EKFALKILV ESQKARREV DLHWQASGC 
      RHIVNIIDV YENKYNNNP CLLVVMECM EGGELFQRI 
      QDKPDGAFT EREAAQIMH EICIAVKYL HDNNIAHRD 
      LKPENLLYS KKGTYGILK LTDFGFAKE TLVKDTLQT 
      PCYTPYYVA PEVLGPEKY DKSCDVWSL GVIMYILLC 
      GFPPFYSNH GLAISPGMK NRIRMGQYT FPNPEWQNV 
      SQDAKDLIN GMLNVDPAK RLTIDQVMS NRWIAQYTA 
      VPQTPLHTH KMLKEGEEM WPEVQEEMT RSLATMRVD 
      YDQVHIKTL ENSNNPLLN KRRKRSANQ VTLKEQK
    CDS sequence
    • >TC013565 RA
      atgaatagg gagatgcgg caaagtcac aggacaccg 
      aagaaaacg ccaattact gacgattac gacattact 
      aagacggtt ttaggcctc gggatcaac ggtaaagtc 
      gtcgagtgt ttttctaag gctacaaaa gagaagttc 
      gctctaaag atacttgtc gagagccag aaggctaga 
      agggaggtc gatttgcat tggcaagcc agtggctgc 
      cgccacata gtcaatata atcgacgtc tatgagaat 
      aaatacaat aacaaccct tgtttacta gttgtgatg 
      gaatgcatg gagggcgga gagctgttc cagcggatt 
      caggataaa cctgacggg gctttcact gagagagag 
      gcggcacag atcatgcat gagatatgc attgcggtg 
      aaataccta cacgataat aacattgca cacagggac 
      ttaaaacca gagaattta ctttactca aagaaaggt 
      acttacggt atacttaag ttaactgat ttcggcttt 
      gctaaggaa actttagtg aaggacacc cttcagacg 
      ccttgttat acaccatat tatgttgct cctgaagtt 
      ttagggcct gagaaatac gataagagc tgtgatgtt 
      tggtcttta ggagtcatt atgtacatt ttgttgtgc 
      gggttccct ccattttat agcaatcat ggcttggcg 
      atttcgcca ggaatgaaa aataggata cgaatgggc 
      caatacaca ttccctaat cctgagtgg caaaatgtt 
      agtcaagac gctaaagac cttattaat ggtatgctt 
      aacgtggat ccggccaag cgactgaca attgatcaa 
      gtcatgagc aatagatgg attgctcaa tacacagct 
      gtgcctcaa acccccttg catactcat aaaatgcta 
      aaagaaggt gaagagatg tggcctgaa gtacaggag 
      gaaatgacg cgctcgttg gccacaatg agagtggat 
      tatgaccaa gtgcatata aaaacgcta gaaaattca 
      aataacccg ctgctgaat aaaaggcgt aagcgttcg 
      gcgaatcaa gtgacgcta aaggagcag aaataa
    mRNA sequence
    • >TC013565 RA
      gcacttaag ccaaacaaa tgagtatag tttgctgtg 
      gctcaggtg actagaagt atactttgc actcttatt 
      gctcatttg actatgtaa ttaattttt ttatgaatt 
      agtttcgtt tttggtaat tgaagtcca ctaaaatgt 
      ttgaatttc atggccagc gacgtgtca ggagccagg 
      ggcgaatgc gcagatgcg tcgtttttt gtgcaaatt 
      atgtcacat ccttatgat tcctttatt ggttatgta 
      ccctaagta aacaaaaat tttcggatt gtttgatga 
      ataaatgtg gacttgtaa ataaatgtt tggttgaaa 
      tcaaaagaa gtaaaaaat gaataggga gatgcggca 
      aagtcacag gacaccgaa gaaaacgcc aattactga 
      cgattacga cattactaa gacggtttt aggcctcgg 
      gatcaacgg taaagtcgt cgagtgttt ttctaaggc 
      tacaaaaga gaagttcgc tctaaagat acttgtcga 
      gagccagaa ggctagaag ggaggtcga tttgcattg 
      gcaagccag tggctgccg ccacatagt caatataat 
      cgacgtcta tgagaataa atacaataa caacccttg 
      tttactagt tgtgatgga atgcatgga gggcggaga 
      gctgttcca gcggattca ggataaacc tgacggggc 
      tttcactga gagagaggc ggcacagat catgcatga 
      gatatgcat tgcggtgaa atacctaca cgataataa 
      cattgcaca cagggactt aaaaccaga gaatttact 
      ttactcaaa gaaaggtac ttacggtat acttaagtt 
      aactgattt cggctttgc taaggaaac tttagtgaa 
      ggacaccct tcagacgcc ttgttatac accatatta 
      tgttgctcc tgaagtttt agggcctga gaaatacga 
      taagagctg tgatgtttg gtctttagg agtcattat 
      gtacatttt gttgtgcgg gttccctcc attttatag 
      caatcatgg cttggcgat ttcgccagg aatgaaaaa 
      taggatacg aatgggcca atacacatt ccctaatcc 
      tgagtggca aaatgttag tcaagacgc taaagacct 
      tattaatgg tatgcttaa cgtggatcc ggccaagcg 
      actgacaat tgatcaagt catgagcaa tagatggat 
      tgctcaata cacagctgt gcctcaaac ccccttgca 
      tactcataa aatgctaaa agaaggtga agagatgtg 
      gcctgaagt acaggagga aatgacgcg ctcgttggc 
      cacaatgag agtggatta tgaccaagt gcatataaa 
      aacgctaga aaattcaaa taacccgct gctgaataa 
      aaggcgtaa gcgttcggc gaatcaagt gacgctaaa 
      ggagcagaa ataacgtct agtgatttt atttcttca 
      aatcaccac ggaacgtgc attttgatt aatatgttt 
      acaaacaaa tcgatttta gctgaatga ttagtgcct 
      aatggaata ggattttaa cgttttaaa attgtatta 
      atttagtta cagttgtat tacaccgtt tgtagtact 
      attatttgg taatagtaa tacaacaca cggtgcaac 
      aacataatg ttaagaaaa tgtattata tgctacgat 
      tgaaggtgc ttttggaat ttcctgttc aagagaagt 
      gtcactgtt gattaaaaa tttactaca aaatttatc 
      agacatttc gatttcata agcatcttg atttaaata 
      tttttttag aaaaaacgt aaatcattt tcacgattt 
      actagcaca tgatgagtg ctattttaa tgtaaattg 
      ctaataaac tcttaataa agttactta aattgt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY