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Gene information
General information
TC000964 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_007417.3: 8987890..8990047
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
    TC000964
    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_09636

    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
    • >TC000964 RA
      MVSAKFYFL VVIEALLFI CVRSEELFA KQQIQSYVS 
      CRNDADCKN NSFCYGNDD NTYGKCKCT EGFELNRIN 
      ATDYECLPR VYLGDACEE DFQCQLVAT PLAVCNDKK 
      ICECSPGSH SVQRKCFAD VRLGEVCMV HDNCLLSDG 
      TYAFCVAGV CTCRKNEAP SPDKTLCLG SRNLGQPCK 
      SDKECISVP NARCLEKCV CQTAYTLSR NETECVKAA 
      TEFGEPCDF DGQCSKFLS ESVCNKGVC GCLPGSHKY 
      GSRCVRTKQ IGQSCEKNE ECIYKKEMN GNVRCENKK 
      CMCLFGTNK SGDCNIEKI LDGEGKNAA SDVISTKSL 
      LFSVINILF VIYFT
    CDS sequence
    • >TC000964 RA
      atggtttca gcaaagttt tattttctc gtagtaatt 
      gaagcactt ttgtttata tgtgtacgt tcggaagaa 
      ctatttgct aaacaacag attcaatct tacgtttca 
      tgtcgcaac gatgccgac tgtaagaat aattctttt 
      tgttacgga aatgatgat aatacgtat ggaaaatgc 
      aaatgcacg gaaggattc gaactaaat cggataaac 
      gcaacagat tatgaatgt ttgccaaga gtgtatttg 
      ggggacgcc tgcgaggaa gacttccaa tgccagttg 
      gtggcaacc cctcttgcc gtatgcaat gacaagaaa 
      atatgcgaa tgcagcccc ggaagccac agcgttcag 
      agaaaatgt ttcgccgat gttagattg ggcgaagtc 
      tgcatggtt cacgataac tgtcttctg agcgacggt 
      acttatgct ttttgcgtg gctggcgtc tgcacatgt 
      cgtaaaaac gaagcacca tcacctgac aagactctc 
      tgtctcggc tcaagaaat ttgggacaa ccttgtaaa 
      tcagacaag gaatgtatc tcggttccc aatgcgagg 
      tgcttggaa aaatgtgtg tgccagacg gcttacact 
      ttgtcacga aacgagact gagtgtgtt aaagccgcg 
      accgagttc ggagagccg tgcgatttt gatggccag 
      tgttcgaaa tttttgtca gagagtgtt tgcaataaa 
      ggggtttgt ggctgcttg cctgggtca cacaaatat 
      ggcagtagg tgtgtcagg acgaaacag attgggcaa 
      tcatgcgaa aagaacgag gagtgcatt tacaaaaag 
      gaaatgaat ggaaatgtc aggtgtgag aacaaaaaa 
      tgtatgtgt ttgttcgga accaacaag agtggtgac 
      tgcaatatt gaaaaaata ctagacggg gagggaaag 
      aatgcggcc agtgatgta atttccaca aaaagttta 
      ttgtttagt gtaataaat atcttgttt gttatttat 
      tttacataa
    mRNA sequence
    • >TC000964 RA
      acgtaaata tataaaata taatctctt atctttaga 
      agtaggtaa tcgctgtag ataaaattt tagtgaaca 
      ttgtttgag acagttaac aatggtttc agcaaagtt 
      ttattttct cgtagtaat tgaagcact tttgtttat 
      atgtgtacg ttcggaaga actatttgc taaacaaca 
      gattcaatc ttacgtttc atgtcgcaa cgatgccga 
      ctgtaagaa taattcttt ttgttacgg aaatgatga 
      taatacgta tggaaaatg caaatgcac ggaaggatt 
      cgaactaaa tcggataaa cgcaacaga ttatgaatg 
      tttgccaag agtgtattt gggggacgc ctgcgagga 
      agacttcca atgccagtt ggtggcaac ccctcttgc 
      cgtatgcaa tgacaagaa aatatgcga atgcagccc 
      cggaagcca cagcgttca gagaaaatg tttcgccga 
      tgttagatt gggcgaagt ctgcatggt tcacgataa 
      ctgtcttct gagcgacgg tacttatgc tttttgcgt 
      ggctggcgt ctgcacatg tcgtaaaaa cgaagcacc 
      atcacctga caagactct ctgtctcgg ctcaagaaa 
      tttgggaca accttgtaa atcagacaa ggaatgtat 
      ctcggttcc caatgcgag gtgcttgga aaaatgtgt 
      gtgccagac ggcttacac tttgtcacg aaacgagac 
      tgagtgtgt taaagccgc gaccgagtt cggagagcc 
      gtgcgattt tgatggcca gtgttcgaa atttttgtc 
      agagagtgt ttgcaataa aggggtttg tggctgctt 
      gcctgggtc acacaaata tggcagtag gtgtgtcag 
      gacgaaaca gattgggca atcatgcga aaagaacga 
      ggagtgcat ttacaaaaa ggaaatgaa tggaaatgt 
      caggtgtga gaacaaaaa atgtatgtg tttgttcgg 
      aaccaacaa gagtggtga ctgcaatat tgaaaaaat 
      actagacgg ggagggaaa gaatgcggc cagtgatgt 
      aatttccac aaaaagttt attgtttag tgtaataaa 
      tatcttgtt tgttattta ttttacata ataaaacac 
      attttcttt ataacattt taacagtgt ctatttatt 
      aactgtatt tattagtga atagggtct gctttttat 
      tttacccca agttatatt gtaattgta gcaaaaatc 
      tcgctattt cgcgactta tttcgttta aaatcgtta 
      tctaggtac ataagtttg tataatatg ccttctacc 
      ttgaaaaac aggattcca tacttatag tagtataat 
      aattttagg aaactttta acacataga acaagaaaa 
      ttgcaattt cgaaagcac gtggtgcat ttactattt 
      gtttagatc ctacaaaaa cattattaa attctactt 
      gtgctactt tttgggcga gttactcga gcatgcgag 
      accattttc tgaggggta gagttcgtc cttacattc 
      gcatttaat ttgaaactg acagaaagc cccctcgat 
      gcagtgttc atcatatcg acacctttg ccccacacc 
      tgcaaccac gtggtttat tcttttttc aatttaagg 
      aaaaaaaat acctcccac acatttatc tccataact 
      attaagaat ataattacg gtcacatcg acaggtttg 
      gttgtggcc acaaatata cccaaaagc tgctccaca 
      atcgtattt attgacaca agttcttga aaccacggg 
      agctaaaaa ctaatcttt agaaaatgt atgatctgg 
      gagtggaaa atgatcact tttttgact tgcaataaa 
      atcagtgag aaatg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY