Status
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Gene information
General information
TC009808 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_007422.5: 8484376..8491265
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
    TC009808
    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
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01612

    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: 2 (3 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: % (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
    • >TC009808 RA
      MKVSQSTVM KHSLATYLL FLALLKNIS ALNGAWRWE 
      CKSNYCQKA PITPDTEAT GLSLPACRL FCSEAAALW 
      PKPTGEVHV GTTLVKVNI NSINTGGLT FETAAHKIM 
      AGATKRFRN QIEALVPRK LRLADGGKT LEINYKLID 
      PDLKELNLD TKESYALTV AETADGRLN ATIIADNVF 
      GGRHGLETL NQLIIYDDL RDQLLMPND VSITDEPAY 
      QYRGIALDT SRNFVTVDV IKRTLDGMA ASKLNSFHW 
      HITDSHSFP FTAESLPDL TKYGAYSPK KVYAPEEVA 
      EIVEYGLER GVRVIPEFD APAHVGEGW QNTDFVVCF 
      NAKPWSNYC VEPPCGQLD PTKEKLYDA IEALYGDML 
      KQFKPPLFH MGGDEVHLG CWNSTPSIV QWMQDQKGW 
      GRSEGDFIK LWDMFQNES LTRLYKKAG KEIPVILWT 
      STLTQKEYL ENLPSDKYI IQIWTTGSD PQVRNLLDN 
      GYRVILSNY DALYFDCGF AGWVTDGNN WCSPYIGWQ 
      KVYENKPAK IAGDKKGQV LGAEAALWT EQADSASVD 
      TRLWPRAAA LGEVLWSEP TNTWREAEQ RILVQRERL 
      ISLGINSDA LEPEWCWQN EENCPIGGK FAE
    CDS sequence
    • >TC009808 RA
      atgaaagtg tcacaatcg actgttatg aagcactca 
      ttagccaca tatttactt ttcctcgcg ctactcaaa 
      aatatcagc gccttaaat ggagcatgg cgctgggaa 
      tgcaagagc aactactgc cagaaggcc cccatcacc 
      cccgacact gaagccaca ggtttgagt ctccccgca 
      tgtcgtctg ttttgctcc gaagccgca gccctttgg 
      cccaagccc accggtgaa gtccacgta gggaccacc 
      ctggtcaaa gtcaatatc aacagtata aacacaggg 
      gggcttact tttgaaaca gcagcccat aaaatcatg 
      gcgggggcg acaaaacgg ttcagaaac caaatcgaa 
      gctctggtg ccccgaaaa ctgagactt gcagatggg 
      ggaaaaacg ctggaaatt aattacaag cttatcgac 
      cccgatctt aaggaactc aacctggat acgaaagaa 
      tcgtacgct ttgacggtc gccgagacg gccgatggg 
      cgtctgaac gccacaatc atcgctgat aatgtcttc 
      ggggggcgg cacgggctg gagactctg aaccaattg 
      atcatttac gatgatctc agagaccag cttttgatg 
      cccaacgat gtgagtatt accgacgag ccggcgtat 
      cagtacaga gggatagct ttggatact tcccggaat 
      ttcgtcact gttgatgtt ataaagaga acacttgac 
      gggatggcc gcttcgaaa ctgaacagt ttccactgg 
      catatcacg gatagtcat agctttccc tttacggct 
      gaaagtttg ccagatttg accaaatac ggggcgtat 
      tcgcccaag aaggtttac gctccggaa gaagtggct 
      gaaattgtg gaatatggt ctggagagg ggtgttagg 
      gttattccg gaatttgac gccccagct cacgtcggt 
      gaagggtgg cagaacacg gatttcgtg gtctgtttt 
      aacgccaag ccctggtcg aactactgc gtggagccg 
      ccgtgtggc cagctggac cccaccaaa gagaagctg 
      tacgacgct attgaagct ttatacggc gacatgtta 
      aagcaattc aaaccccct ctcttccat atgggtggc 
      gacgaggtc catttgggc tgctggaac tccactccc 
      agcatcgtg caatggatg caagaccaa aagggttgg 
      ggccgctct gagggagat ttcatcaag ctttgggac 
      atgttccag aacgaatcc ttgactcgt ttatacaaa 
      aaagcaggg aaagaaatt cctgtcatt ttgtggacg 
      agtactttg actcagaaa gaatatctc gagaattta 
      cctagcgat aaatatatt attcaaata tggacgacc 
      gggagcgac ccacaagtc agaaatttg ctcgataat 
      ggctacaga gttattttg agtaattat gacgctctc 
      tattttgac tgcggtttc gccggctgg gtcaccgat 
      ggtaataac tggtgctcg ccatatatc ggatggcag 
      aaagtctac gagaataaa ccagccaaa atcgccggc 
      gataaaaag gggcaagtt ttgggggcc gaagccgct 
      ctttggacc gaacaggcc gatagtgcg agtgttgat 
      actcggctg tggccgcga gcggcggct ttaggtgaa 
      gtactctgg agtgaaccc acgaataca tggagagaa 
      gccgagcaa agaattttg gtgcaaagg gaaagactg 
      attagtttg ggcataaat tcggacgct cttgaaccc 
      gaatggtgt tggcaaaat gaagaaaat tgtcccatt 
      ggtggtaag tttgctgag tga
    mRNA sequence
    • >TC009808 RA
      taactttca caaattatt gttttatga aagtgtcac 
      aatcgactg ttatgaagc actcattag ccacatatt 
      tacttttcc tcgcgctac tcaaaaata tcagcgcct 
      taaatggag catggcgct gggaatgca agagcaact 
      actgccaga aggccccca tcacccccg acactgaag 
      ccacaggtt tgagtctcc ccgcatgtc gtctgtttt 
      gctccgaag ccgcagccc tttggccca agcccaccg 
      gtgaagtcc acgtaggga ccaccctgg tcaaagtca 
      atatcaaca gtataaaca caggggggc ttacttttg 
      aaacagcag cccataaaa tcatggcgg gggcgacaa 
      aacggttca gaaaccaaa tcgaagctc tggtgcccc 
      gaaaactga gacttgcag atgggggaa aaacgctgg 
      aaattaatt acaagctta tcgaccccg atcttaagg 
      aactcaacc tggatacga aagaatcgt acgctttga 
      cggtcgccg agacggccg atgggcgtc tgaacgcca 
      caatcatcg ctgataatg tcttcgggg ggcggcacg 
      ggctggaga ctctgaacc aattgatca tttacgatg 
      atctcagag accagcttt tgatgccca acgatgtga 
      gtattaccg acgagccgg cgtatcagt acagaggga 
      tagctttgg atacttccc ggaatttcg tcactgttg 
      atgttataa agagaacac ttgacggga tggccgctt 
      cgaaactga acagtttcc actggcata tcacggata 
      gtcatagct ttcccttta cggctgaaa gtttgccag 
      atttgacca aatacgggg cgtattcgc ccaagaagg 
      tttacgctc cggaagaag tggctgaaa ttgtggaat 
      atggtctgg agaggggtg ttagggtta ttccggaat 
      ttgacgccc cagctcacg tcggtgaag ggtggcaga 
      acacggatt tcgtggtct gttttaacg ccaagccct 
      ggtcgaact actgcgtgg agccgccgt gtggccagc 
      tggacccca ccaaagaga agctgtacg acgctattg 
      aagctttat acggcgaca tgttaaagc aattcaaac 
      cccctctct tccatatgg gtggcgacg aggtccatt 
      tgggctgct ggaactcca ctcccagca tcgtgcaat 
      ggatgcaag accaaaagg gttggggcc gctctgagg 
      gagatttca tcaagcttt gggacatgt tccagaacg 
      aatccttga ctcgtttat acaaaaaag cagggaaag 
      aaattcctg tcattttgt ggacgagta ctttgactc 
      agaaagaat atctcgaga atttaccta gcgataaat 
      atattattc aaatatgga cgaccggga gcgacccac 
      aagtcagaa atttgctcg ataatggct acagagtta 
      ttttgagta attatgacg ctctctatt ttgactgcg 
      gtttcgccg gctgggtca ccgatggta ataactggt 
      gctcgccat atatcggat ggcagaaag tctacgaga 
      ataaaccag ccaaaatcg ccggcgata aaaaggggc 
      aagttttgg gggccgaag ccgctcttt ggaccgaac 
      aggccgata gtgcgagtg ttgatactc ggctgtggc 
      cgcgagcgg cggctttag gtgaagtac tctggagtg 
      aacccacga atacatgga gagaagccg agcaaagaa 
      ttttggtgc aaagggaaa gactgatta gtttgggca 
      taaattcgg acgctcttg aacccgaat ggtgttggc 
      aaaatgaag aaaattgtc ccattggtg gtaagtttg 
      ctgagtgat aattgtgta aggtgtaag gaaataaat 
      gttatttca attg
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