Status
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Gene information
General information
TC007773 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_007419.2: 248185..249777
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
      TC007773
      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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      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_04379

      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: 50.0% (includes death as pupa, adult)

      eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 5 (3 dpi)
      Days post injection


      Analysis of embryonic musculature and early development
      number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): less than 30%

      larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

      affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
      remarks: muscle pattern potentially obscured by segmentation defect,
      Analysis of larval stage 1 cuticle
      number of eggs/embryos/larvae on slide: > 50
      embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%

      cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

      affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 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)

      RNAi sequence
      Primers
      Left: Right:
      Protein sequence
      • >TC007773 RA
        MSNIACWMS EKKIQKINW VEFEKTCKQ YGFGLFKLD 
        LNTSLESQG TFCVFLHKL TDIIASADQ GDPKCASLI 
        HRVEEYIKA HPSLVVLDP ISNVRQLLN RYISYRKIN 
        STNLHKFGI FIPNFCELN SNNLQELSN QLKNSKVTY 
        PFICKPSLG HGSKEAHSM SLIFNEKGL HDCKTPCVA 
        QSFINHNAV LYKIFIVGD KHHFVERPS LKNFHACDD 
        ETIHFDSSD VSKAGSRNS LTLLEPYEI VDKVEPDPE 
        VLKRIAVTL RDEFGMDLL GVDVVIENN TGRYAIIDI 
        NSYPGYDGF PDFYDALVN CINKKVNSK CKIDKFGDN
      CDS sequence
      • >TC007773 RA
        atgtcgaac attgcgtgt tggatgtct gagaaaaaa 
        atccaaaaa atcaattgg gttgagttt gaaaaaacg 
        tgcaaacag tacggtttt ggcttattc aagttggat 
        ttaaacact agtctagag tcgcaaggt acgttctgt 
        gttttttta cataaatta actgatatt attgcttcg 
        gctgatcag ggggaccct aagtgtgcc agtttgatt 
        caccgagtt gaagagtac ataaaagcc cacccatcg 
        ttggtcgta cttgaccca atctccaat gtgcgtcag 
        ctgctcaac cgatacata tcataccgg aaaatcaac 
        tcaacaaat ttgcacaaa ttcggtatt tttataccg 
        aatttctgc gaactgaat tcaaacaac ttgcaagag 
        ctttcaaac cagttgaaa aattccaaa gtcacttat 
        ccgttcatt tgtaagcct agtctgggc cacgggtca 
        aaagaggcc cattcgatg tctctaatt ttcaacgag 
        aaaggctta cacgattgc aaaaccccc tgtgttgct 
        caaagtttc atcaatcat aatgcagtc ttgtataag 
        atttttata gtcggtgat aagcaccat tttgtggag 
        cggccttct cttaaaaat ttccatgct tgtgatgac 
        gaaacgatt cattttgat agtagtgat gtctcaaaa 
        gcgggctct cggaacagt ttgacgctt ctagaaccg 
        tatgaaatt gtagacaag gtggagcct gatccagag 
        gttctgaaa cggattgct gtgactttg agggatgag 
        tttgggatg gatttatta ggggttgat gttgtgatt 
        gagaacaat acagggagg tatgcaatc attgacatt 
        aacagctat ccaggctat gatgggttt ccggatttc 
        tatgacgct cttgtgaat tgtattaat aagaaagtt 
        aactccaaa tgtaagatt gataagttt ggtgataat 
        taa
      mRNA sequence
      • >TC007773 RA
        tcttgtcgt cgtaaatca atgatttat tacgacttg 
        ttcagggaa cgtgtgttt gctggttta attgcgttt 
        tgattacgt cctacgttt agatgacgt taggggggc 
        aggtgacag aatttatgg gtggcccca ttaccaatt 
        cattccaca tgacgccgt acaacaaac agtttaaat 
        aacagtcgt gtttatttg ttacgcaaa aaaatgtcg 
        aacattgcg tgttggatg tctgagaaa aaaatccaa 
        aaaatcaat tgggttgag tttgaaaaa acgtgcaaa 
        cagtacggt tttggctta ttcaagttg gatttaaac 
        actagtcta gagtcgcaa ggtacgttc tgtgttttt 
        ttacataaa ttaactgat attattgct tcggctgat 
        cagggggac cctaagtgt gccagtttg attcaccga 
        gttgaagag tacataaaa gcccaccca tcgttggtc 
        gtacttgac ccaatctcc aatgtgcgt cagctgctc 
        aaccgatac atatcatac cggaaaatc aactcaaca 
        aatttgcac aaattcggt atttttata ccgaatttc 
        tgcgaactg aattcaaac aacttgcaa gagctttca 
        aaccagttg aaaaattcc aaagtcact tatccgttc 
        atttgtaag cctagtctg ggccacggg tcaaaagag 
        gcccattcg atgtctcta attttcaac gagaaaggc 
        ttacacgat tgcaaaacc ccctgtgtt gctcaaagt 
        ttcatcaat cataatgca gtcttgtat aagattttt 
        atagtcggt gataagcac cattttgtg gagcggcct 
        tctcttaaa aatttccat gcttgtgat gacgaaacg 
        attcatttt gatagtagt gatgtctca aaagcgggc 
        tctcggaac agtttgacg cttctagaa ccgtatgaa 
        attgtagac aaggtggag cctgatcca gaggttctg 
        aaacggatt gctgtgact ttgagggat gagtttggg 
        atggattta ttaggggtt gatgttgtg attgagaac 
        aatacaggg aggtatgca atcattgac attaacagc 
        tatccaggc tatgatggg tttccggat ttctatgac 
        gctcttgtg aattgtatt aataagaaa gttaactcc 
        aaatgtaag attgataag tttggtgat aattaagta 
        aaaaatact gccaaaagt aacattcca tatttttga 
        tgaaacgcc aaattgaga aaaagacat gatttttga 
        ctgattgtg gagccaaag atcgcttgt caagtattg 
        taaaatgaa caatttttg tacttatat tgtatataa 
        tttactatt gtacactgg taatttgta gctagtggc 
        ctcaatata cacgataac atttg
      The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY