Status
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Gene information
General information
TC005516 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: 11854663..11856713
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
    TC005516
    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_00873

    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: 90.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 6 (9 dpi)
    Days post injection


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


    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: 90.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    larva lethality late (L7) - Number of animals showing the phenotype: 7 (11 dpi)
    Days post injection


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    larva lethality late (L7) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005516 RA
      MEAPTAASA PPDDDDEIV KEIPIFNST RLQNSLYLL 
      RYPLLSKKC TNELTIKRG FFKPSNQEV ELEMAIDVA 
      SSNFDSDRA ELIAQEIDG APEERKTSK IHFENDLVD 
      KVSLKSSKA VKEASKYAA LAYTGREIH LTTLRNIFQ 
      FRPSFNYLD RGAKKRKDA DHNDLSDED EAGPSTAEL 
      ITVKFKQSD DRWKKSKND KVSEMKSVD EAWTNCEVH 
      TENSSLSKV EKLKLIAEN TEPTGQAMN LPDLDYIRV 
      LVPEDEGQG TTEPSSPSH IMSLHTLRA SPILEQCRV 
      LLKDAQIIQ FQQLLMILA GGEGLTAET LLKNLPKVA 
      VLVRGNWVV KSEVLYPSN TFSSTSGVP AELMCRTRD 
      YVLYLFTKN QYVERKKVS SVMKIPSEE VKEIFTGFS 
      RLRHNKGWE LVLPTDNDF ILKHGDIVQ RQGEAWEQK 
      FKQLSEFLK DNKRQRRKS KSVSEDCKM RNGVSSDND 
      SGTEKNKSP VAARKKIAK VQENTS
    CDS sequence
    • >TC005516 RA
      atggaggct ccaaccgcc gcgagtgcc ccacccgat 
      gacgacgac gaaatcgtg aaagagatc ccaattttt 
      aactccacg cgcctccag aacagcctc tacctgttg 
      cggtacccc ctcttgtcg aaaaaatgc acgaatgag 
      ttgaccatc aaacgtggt tttttcaaa cccagtaac 
      caggaggtt gagctggag atggcaatt gatgtggcg 
      tcctcgaat ttcgatagt gatcgggcc gaactgatc 
      gctcaggag atcgacggg gcgccggaa gagcgcaaa 
      actagtaaa attcatttt gagaatgat ctggtcgat 
      aaagttagt ctgaagtcg tccaaagcg gtcaaagag 
      gcgagtaaa tacgccgcg ttggcgtac acaggccgg 
      gagatacat ttgacgacg ttgcgaaat atatttcag 
      ttcagaccc agttttaat taccttgat agaggtgcg 
      aaaaaacgg aaagatgca gatcataac gatttgagc 
      gatgaggac gaggcgggg ccgagcact gccgagctg 
      atcaccgtc aagttcaag cagagtgat gatcggtgg 
      aagaaatcc aaaaatgac aaagtttcg gagatgaaa 
      agtgtcgat gaagcttgg acgaactgt gaagtgcac 
      acggaaaat agttctttg agtaaagtg gaaaagttg 
      aaactgatt gcggaaaat accgaaccc acgggccag 
      gctatgaat ttgccagac ttggattat atccgggtt 
      ttggttcct gaagatgag gggcaaggg acaacagag 
      ccgtcttcg ccctctcac atcatgtct ttgcacact 
      ttgagggcg tcccccatt ctagaacag tgccgggtt 
      ttgctcaaa gacgcccaa atcatacaa ttccaacaa 
      ctgttgatg attctagca gggggtgaa ggtctgacg 
      gctgaaacc ttgttgaag aacttgccc aaggtggct 
      gtcctagtt aggggtaat tgggtggtg aaaagtgaa 
      gtgttgtac cccagtaac acgttttct tcaactagc 
      ggggtcccc gctgagctg atgtgccgg acacgggat 
      tatgtgttg tatttattc actaaaaat cagtacgtt 
      gagcggaaa aaggtctcc tcggtgatg aagatcccc 
      tcggaagag gtgaaggag atcttcacg ggcttctca 
      cgtcttcgt cataataaa ggctgggag ttggtgttg 
      cccactgat aacgatttt atcttgaaa catggcgat 
      atagtgcaa agacagggc gaggcgtgg gaacagaag 
      tttaaacag ttgagtgag tttttaaaa gacaataaa 
      cggcaaaga cggaagagt aaaagtgtg agtgaagat 
      tgtaaaatg cggaacgga gtgagttcg gataatgat 
      tccgggacg gaaaaaaat aaatcgccg gtggcggct 
      aggaaaaaa attgccaag gtgcaggag aatacgtcg 
      tga
    mRNA sequence
    • >TC005516 RA
      gagtgcgtg tacaattct cgcccttta aatgcgttt 
      atttcgcgc ttgagccaa gtatggagg ctccaaccg 
      ccgcgagtg ccccacccg atgacgacg acgaaatcg 
      tgaaagaga tcccaattt ttaactcca cgcgcctcc 
      agaacagcc tctacctgt tgcggtacc ccctcttgt 
      cgaaaaaat gcacgaatg agttgacca tcaaacgtg 
      gttttttca aacccagta accaggagg ttgagctgg 
      agatggcaa ttgatgtgg cgtcctcga atttcgata 
      gtgatcggg ccgaactga tcgctcagg agatcgacg 
      gggcgccgg aagagcgca aaactagta aaattcatt 
      ttgagaatg atctggtcg ataaagtta gtctgaagt 
      cgtccaaag cggtcaaag aggcgagta aatacgccg 
      cgttggcgt acacaggcc gggagatac atttgacga 
      cgttgcgaa atatatttc agttcagac ccagtttta 
      attaccttg atagaggtg cgaaaaaac ggaaagatg 
      cagatcata acgatttga gcgatgagg acgaggcgg 
      ggccgagca ctgccgagc tgatcaccg tcaagttca 
      agcagagtg atgatcggt ggaagaaat ccaaaaatg 
      acaaagttt cggagatga aaagtgtcg atgaagctt 
      ggacgaact gtgaagtgc acacggaaa atagttctt 
      tgagtaaag tggaaaagt tgaaactga ttgcggaaa 
      ataccgaac ccacgggcc aggctatga atttgccag 
      acttggatt atatccggg ttttggttc ctgaagatg 
      aggggcaag ggacaacag agccgtctt cgccctctc 
      acatcatgt ctttgcaca ctttgaggg cgtccccca 
      ttctagaac agtgccggg ttttgctca aagacgccc 
      aaatcatac aattccaac aactgttga tgattctag 
      cagggggtg aaggtctga cggctgaaa ccttgttga 
      agaacttgc ccaaggtgg ctgtcctag ttaggggta 
      attgggtgg tgaaaagtg aagtgttgt accccagta 
      acacgtttt cttcaacta gcggggtcc ccgctgagc 
      tgatgtgcc ggacacggg attatgtgt tgtatttat 
      tcactaaaa atcagtacg ttgagcgga aaaaggtct 
      cctcggtga tgaagatcc cctcggaag aggtgaagg 
      agatcttca cgggcttct cacgtcttc gtcataata 
      aaggctggg agttggtgt tgcccactg ataacgatt 
      ttatcttga aacatggcg atatagtgc aaagacagg 
      gcgaggcgt gggaacaga agtttaaac agttgagtg 
      agtttttaa aagacaata aacggcaaa gacggaaga 
      gtaaaagtg tgagtgaag attgtaaaa tgcggaacg 
      gagtgagtt cggataatg attccggga cggaaaaaa 
      ataaatcgc cggtggcgg ctaggaaaa aaattgcca 
      aggtgcagg agaatacgt cgtgattgg ggctttcga 
      cgagttgaa atggctgta atgaggatt tgtatatct 
      cgggacggg aatacaggt aaaaatgcg aaatgtaac 
      tcgttaaat gactgtaat ttgtattcg ttggaaacg 
      agaaagctg caaaatgtt aaattaatt tattattaa 
      gacgaaata aagaaatac ttttttaat cagttgttt 
      ttttacaca tacactcct ctcatcctc gacctagct 
      aaagttcca cagtttttg tctccaaag ttcgctaaa 
      tcaagtttt gagcgctac tttaaaaat tttgagcca 
      gtaattcac ttattttgc gaggtttta aaaagttac 
      gaattcaaa aatatattc aaaaaaaca atatgtaac 
      accatacat aaataaaag atataaaga aac
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY