Status
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Gene information
General information
TC005922 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: 5533625..5535379
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
    TC005922
    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_08873

    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: 70.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 6 (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: % (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
    • >TC005922 RA
      MVQTTDFYN TCLSDFKEI THKPTNFLQ ISDPLCEKI 
      KTSLKKCYD YAKAEEITR TDALPQLNV KNFDLEQIW 
      QQIELQNEN LTTKSVTCV SRLIAGKSR LLFKNLDKS 
      GISDDGSEV EENDDGSEV EENSEHSDT SGDESNDLN 
      DVESSDDEV ETTETSKPV KRSIVDDDF FKLDEMERF 
      LREEEKKEE GVDSGNDSE SEASVDLFE ADSDDSEDH 
      AKTAKYKDF FVQNEEKPS TFELRQKRL AKKIEEIEE 
      EAIQDKTWQ LKGEITAEK RPQNSLLEE VVEFDMTTR 
      PPPVMTEQT TMQLEDIIK RRIKDKVFD SVERKAKPV 
      ENLLDYKKK IVLDQEKSK ESLAQIYEK EFLQAQEPE 
      DREKEEPEL HKEINSLMR KLFTKLDAL SNFHFTPKP 
      AVPDLKIIS NLPAISVEE VVPTAVSDA TLLAPEEIQ 
      KKPKGDLVG VKERTTTDK KRERRKKKL KQKIHAKNK 
      KEPVKKAKN VNLMEDKGK RIKSSKEFF NQLQEQVQV 
      SQIKRKAAP TTNKKSAKK LKL
    CDS sequence
    • >TC005922 RA
      atggtacaa actacggat ttttacaat acgtgcctc 
      tcagatttt aaggagata acgcacaaa cctacaaat 
      ttcctccag attagtgac cctctttgt gagaaaatc 
      aaaactagc ttaaaaaaa tgttacgat tacgcgaaa 
      gcggaggaa atcaccaga acggacgct ttgccacaa 
      ttaaatgta aaaaatttc gacttggag caaatttgg 
      caacaaatc gagttacaa aacgagaat ttaaccacc 
      aaaagtgtg acttgtgtt agcagacta atcgctggt 
      aaaagccga cttttattt aaaaatcta gacaagagt 
      ggaattagc gatgacgga agtgaagtt gaagaaaac 
      gatgatgga agtgaagtt gaggaaaat tcggagcat 
      tctgacacc agtggtgat gaatcaaac gatttaaac 
      gacgtggag agctctgat gatgaagtc gagacgacc 
      gaaacgagc aaacccgta aaacggtca atcgtcgac 
      gatgatttc ttcaaactg gacgaaatg gagcgtttt 
      cttcgcgaa gaggagaag aaagaggaa ggtgttgat 
      tccggcaac gattctgaa tctgaggca agtgttgat 
      ttatttgag gctgattcc gatgactcg gaagatcac 
      gcaaagacg gcgaaatac aaagacttc ttcgtccaa 
      aatgaagaa aagccgtcg actttcgaa ttgcgccaa 
      aagcgtctg gctaagaaa atcgaagaa attgaagag 
      gaagcaatt caggacaag acttggcaa ttaaagggt 
      gaaataacg gccgagaaa cggccccaa aattcgctc 
      cttgaggag gtcgtggag tttgatatg acgacaagg 
      ccgccccct gtaatgacc gaacaaacc acaatgcag 
      ttggaggat atcataaaa agaagaatc aaagacaaa 
      gtgtttgat agtgtggaa cgtaaggca aagccggtg 
      gaaaatttg ttagactat aagaaaaaa atcgtcttg 
      gaccaggaa aaaagcaaa gagtctttg gcacaaatc 
      tacgagaag gagtttctt caagcgcaa gaacccgaa 
      gatagggag aaagaagaa ccagagctc cacaaggaa 
      attaactct ttgatgagg aaattgttc acgaaattg 
      gacgctttg agcaatttc cactttacg ccaaagcct 
      gcagttccc gatttgaaa attatcagt aatttaccg 
      gcgattagt gtggaagaa gtggtgcca actgcggta 
      agtgatgcc acattgttg gcacctgaa gaaatacaa 
      aagaaacca aaaggtgat ctcgtcgga gtgaaagaa 
      aggacaacg actgataaa aaaagggaa cggagaaaa 
      aagaaattg aagcaaaaa attcacgcc aaaaataag 
      aaggaacca gtcaagaaa gcaaaaaat gttaatttg 
      atggaggac aagggaaag aggataaag tcgtccaag 
      gagtttttc aatcagttg caagaacaa gtccaggtt 
      tcgcaaatt aagagaaaa gcggcccct actaccaat 
      aaaaagagc gcgaaaaaa ttaaaattg taa
    mRNA sequence
    • >TC005922 RA
      ctgttgcac accataacc ttaaaaaac atgtgtttg 
      taaatttgt aatgcggaa aaaatggta caaactacg 
      gatttttac aatacgtgc ctctcagat tttaaggag 
      ataacgcac aaacctaca aatttcctc cagattagt 
      gaccctctt tgtgagaaa atcaaaact agcttaaaa 
      aaatgttac gattacgcg aaagcggag gaaatcacc 
      agaacggac gctttgcca caattaaat gtaaaaaat 
      ttcgacttg gagcaaatt tggcaacaa atcgagtta 
      caaaacgag aatttaacc accaaaagt gtgacttgt 
      gttagcaga ctaatcgct ggtaaaagc cgactttta 
      tttaaaaat ctagacaag agtggaatt agcgatgac 
      ggaagtgaa gttgaagaa aacgatgat ggaagtgaa 
      gttgaggaa aattcggag cattctgac accagtggt 
      gatgaatca aacgattta aacgacgtg gagagctct 
      gatgatgaa gtcgagacg accgaaacg agcaaaccc 
      gtaaaacgg tcaatcgtc gacgatgat ttcttcaaa 
      ctggacgaa atggagcgt tttcttcgc gaagaggag 
      aagaaagag gaaggtgtt gattccggc aacgattct 
      gaatctgag gcaagtgtt gatttattt gaggctgat 
      tccgatgac tcggaagat cacgcaaag acggcgaaa 
      tacaaagac ttcttcgtc caaaatgaa gaaaagccg 
      tcgactttc gaattgcgc caaaagcgt ctggctaag 
      aaaatcgaa gaaattgaa gaggaagca attcaggac 
      aagacttgg caattaaag ggtgaaata acggccgag 
      aaacggccc caaaattcg ctccttgag gaggtcgtg 
      gagtttgat atgacgaca aggccgccc cctgtaatg 
      accgaacaa accacaatg cagttggag gatatcata 
      aaaagaaga atcaaagac aaagtgttt gatagtgtg 
      gaacgtaag gcaaagccg gtggaaaat ttgttagac 
      tataagaaa aaaatcgtc ttggaccag gaaaaaagc 
      aaagagtct ttggcacaa atctacgag aaggagttt 
      cttcaagcg caagaaccc gaagatagg gagaaagaa 
      gaaccagag ctccacaag gaaattaac tctttgatg 
      aggaaattg ttcacgaaa ttggacgct ttgagcaat 
      ttccacttt acgccaaag cctgcagtt cccgatttg 
      aaaattatc agtaattta ccggcgatt agtgtggaa 
      gaagtggtg ccaactgcg gtaagtgat gccacattg 
      ttggcacct gaagaaata caaaagaaa ccaaaaggt 
      gatctcgtc ggagtgaaa gaaaggaca acgactgat 
      aaaaaaagg gaacggaga aaaaagaaa ttgaagcaa 
      aaaattcac gccaaaaat aagaaggaa ccagtcaag 
      aaagcaaaa aatgttaat ttgatggag gacaaggga 
      aagaggata aagtcgtcc aaggagttt ttcaatcag 
      ttgcaagaa caagtccag gtttcgcaa attaagaga 
      aaagcggcc cctactacc aataaaaag agcgcgaaa 
      aaattaaaa ttgtaaatg aataaatcc ttactgtaa 
      at
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY