Status
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Gene information
General information
TC015978 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: 167397..169481
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
    TC015978
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05936

    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 (died as pupa) - 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
    • >TC015978 RA
      MEVVANLRN SFESGKTKP LHFRMKQLK ALLRMYEEN 
      MPQMLEALH KDLRKCKHE AVVMETEYL LNDLKNTIA 
      NLHKWAQPE RPPKRFVNL LDSLRIYSE PYGVVLVIG 
      SWNYPIQLT LLPVAGAIA AGNCVVIKP SEVSAACSK 
      FMAETIPKY LDSDCYRVY EGGVAQTTE LLKQRFDYI 
      FYTGSSQVG KIIHSAANQ YLTPVTLEL GGKSPVYLD 
      KTANIKVAT KRILWGKCV NMGQTCVAP DYVICSKEV 
      RDKFVDCAK TVLVEFFGT NPKESPDLG RIINERQFQ 
      RLVNLLRGH KPAIGGSFD ASDRFIEPT ILTDVQANS 
      PIMLEEIFG PILPIITVG DASEAVKFI NSREKPLVF 
      YIFSTCSKD VNLLVENTS SGGVLVNDT IMHMATDMP 
      FGGVGFSGM GCYHAKYTF DTFSHKKSC LYKDLGLLG 
      ETLGAARYP PYTPGKLKF LNLLLRRWP GFPWKACLL 
      HTFIFSVGF VSAIGYKYF LDEKH
    CDS sequence
    • >TC015978 RA
      atggaagtg gtcgcaaat ttgcgcaac tcattcgaa 
      agcggcaaa accaagccc ttgcacttc cgaatgaag 
      cagctcaaa gccctgctt cgcatgtac gaggaaaac 
      atgccccaa atgctcgaa gccctgcac aaagatttg 
      cggaaatgc aaacacgaa gcggtggta atggagacc 
      gagtacctc ctcaacgac ctcaagaac accatcgcg 
      aacttgcac aagtgggcg cagcccgag cgccccccg 
      aagcgcttc gtcaacttg ctcgactcc ttgcgcatc 
      tacagcgag ccctatggg gttgtcctg gtcatcggc 
      tcctggaac taccccatt cagctcacc ctgctcccc 
      gttgcgggg gcgatcgcg gctgggaat tgcgtcgtg 
      atcaagcca tcggaggtc tccgcagct tgctcgaaa 
      ttcatggcg gagacaatc cccaagtac ctcgacagt 
      gattgttac agagtgtac gaagggggc gtagcacaa 
      accaccgaa ttgttgaaa caaaggttt gattatatt 
      ttttacacg ggctcttcg caagtcggc aaaattatt 
      cattccgcc gctaatcag tatttaact ccagttacg 
      ttagaactg ggcgggaaa agtccggtt tatttggac 
      aaaaccgca aatattaaa gtcgcaacc aagcgaatt 
      ttgtgggga aaatgcgta aatatgggg caaacttgt 
      gttgcacct gactatgtt atttgttcg aaggaagtt 
      cgcgataaa ttcgtagat tgtgccaaa acggtcctt 
      gttgagttt ttcggtacc aacccgaag gaatccccc 
      gatttgggg cgcataatt aacgaaaga cagttccaa 
      aggcttgtt aaccttctc agaggacac aaaccggca 
      attgggggc tcatttgat gcctctgac cgttttata 
      gaacccaca attttgacc gatgttcaa gcaaacagc 
      cccataatg cttgaagaa attttcggt cccattctc 
      ccaattatc acagttggt gatgcgtcc gaagctgtt 
      aaatttata aattcgcgc gaaaaaccg ttggttttt 
      tacattttt tccacttgt tccaaagat gtgaatctg 
      ttggttgag aatacttca tcagggggt gttctggtc 
      aatgatact ataatgcac atggctacg gatatgccc 
      tttggaggg gttggtttt agcgggatg gggtgctat 
      cacgccaag tatacgttc gatacgttt tcgcacaag 
      aagagttgt ttgtataaa gatttgggg ttgttgggg 
      gaaactttg ggggctgcc aggtatcca ccctacact 
      cccggaaaa ttgaaattt ttgaatttg ctactaaga 
      aggtggccg ggatttcca tggaaggct tgcttgctg 
      catactttt atattcagt gtggggttt gtttcggct 
      attgggtat aagtatttc cttgacgaa aagcattga
    mRNA sequence
    • >TC015978 RA
      agaatcatt gactggtcg gctgtaatt ttttaactg 
      tcatgcaat ggcgctgtc tgatatcac atgtcaagt 
      tcatgaagt gtcaagttg attaattta ttcaaacaa 
      aaaatcgcc aaaatggaa gtggtcgca aatttgcgc 
      aactcattc gaaagcggc aaaaccaag cccttgcac 
      ttccgaatg aagcagctc aaagccctg cttcgcatg 
      tacgaggaa aacatgccc caaatgctc gaagccctg 
      cacaaagat ttgcggaaa tgcaaacac gaagcggtg 
      gtaatggag accgagtac ctcctcaac gacctcaag 
      aacaccatc gcgaacttg cacaagtgg gcgcagccc 
      gagcgcccc ccgaagcgc ttcgtcaac ttgctcgac 
      tccttgcgc atctacagc gagccctat ggggttgtc 
      ctggtcatc ggctcctgg aactacccc attcagctc 
      accctgctc cccgttgcg ggggcgatc gcggctggg 
      aattgcgtc gtgatcaag ccatcggag gtctccgca 
      gcttgctcg aaattcatg gcggagaca atccccaag 
      tacctcgac agtgattgt tacagagtg tacgaaggg 
      ggcgtagca caaaccacc gaattgttg aaacaaagg 
      tttgattat attttttac acgggctct tcgcaagtc 
      ggcaaaatt attcattcc gccgctaat cagtattta 
      actccagtt acgttagaa ctgggcggg aaaagtccg 
      gtttatttg gacaaaacc gcaaatatt aaagtcgca 
      accaagcga attttgtgg ggaaaatgc gtaaatatg 
      gggcaaact tgtgttgca cctgactat gttatttgt 
      tcgaaggaa gttcgcgat aaattcgta gattgtgcc 
      aaaacggtc cttgttgag tttttcggt accaacccg 
      aaggaatcc cccgatttg gggcgcata attaacgaa 
      agacagttc caaaggctt gttaacctt ctcagagga 
      cacaaaccg gcaattggg ggctcattt gatgcctct 
      gaccgtttt atagaaccc acaattttg accgatgtt 
      caagcaaac agccccata atgcttgaa gaaattttc 
      ggtcccatt ctcccaatt atcacagtt ggtgatgcg 
      tccgaagct gttaaattt ataaattcg cgcgaaaaa 
      ccgttggtt ttttacatt ttttccact tgttccaaa 
      gatgtgaat ctgttggtt gagaatact tcatcaggg 
      ggtgttctg gtcaatgat actataatg cacatggct 
      acggatatg ccctttgga ggggttggt tttagcggg 
      atggggtgc tatcacgcc aagtatacg ttcgatacg 
      ttttcgcac aagaagagt tgtttgtat aaagatttg 
      gggttgttg ggggaaact ttgggggct gccaggtat 
      ccaccctac actcccgga aaattgaaa tttttgaat 
      ttgctacta agaaggtgg ccgggattt ccatggaag 
      gcttgcttg ctgcatact tttatattc agtgtgggg 
      tttgtttcg gctattggg tataagtat ttccttgac 
      gaaaagcat tgatatttt gttgttgtt ttaatggta 
      aaggtgttg tattgcatg tattagccc agggaacaa 
      ttttgtatt gttaaggta aaagtatat tattgtttt 
      aatattgag atgtttatt atattttgc tataataaa 
      atgtatgtt ttgtg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY