Status
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Gene information
General information
TC012020 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_007424.3: 7733056..7734644
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
    TC012020
    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
    {{ goGene }}
    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
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    Email
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_08950

    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: 40.0% (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


    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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
    • >TC012020 RA
      MSDETESPY SMTESLLEL RRRKPSYGR LSTQLFVGT 
      LACLSSISL GTTLGWSHP VSQNLVMNY EDVADNKLT 
      VLLSISLLG CGFGVSSCS FMINHWGPK RGMQFIGVF 
      YILTWWLIL IPRSAVQLP GRFFLGFLG ISYSMCGET 
      LYLQTVHFR LKRYISVFQ NSSMVFGVF ISHVVGVAT 
      TTFYLSVCC ALIPTLHYF FVLIVPESP VFLYQTSHV 
      AAAKSLAWY RGEGNFYED MANLKKDWD ATRYDADSY 
      GYMFTAKVV YRGLLIVLG VTYFQAFGG YFIFLFYEV 
      RVWAEGSVI SPVVDSTLG AFFFVVSKL LWSISHEFR 
      WKNVRPLLI SSCFFSALA LTAIAVYLI LDNYGFNFV 
      KWLNWMPTL ALACFLFAF EMGLNYFPK VLTFEYMPF 
      QVYKRASMI VQSVHWLIA FINIYCFAS SFTTIPTYV 
      AFIILAVQG YVGTVFCYY FVVEPRGKS LVQVQLELG 
      GNPIGKRGA LYNQTKRTH VIN
    CDS sequence
    • >TC012020 RA
      atgtcggac gaaaccgag agtccttac tccatgacc 
      gaatcgcta cttgagctc cgacgccgc aagcccagc 
      tacggccgc ctctcgacg caactcttc gtcggaacc 
      ctagcttgc ctctcgtcg atctccctg ggcacgacg 
      ctggggtgg tcgcacccg gtgtcgcaa aacctggtc 
      atgaactac gaggacgtg gccgacaac aagctcacc 
      gtcctgctg agcatctcg ctgctgggg tgcggcttc 
      ggcgtgagc tcgtgctcg ttcatgatc aaccactgg 
      ggccccaag aggggcatg cagttcatc ggcgtgttc 
      tacatcctg acctggtgg ctcatcctc atcccgcgc 
      agcgcggtg cagctgccg gggcgcttc ttcctcggc 
      tttctgggc atttcgtac tcgatgtgc ggcgagacc 
      ttgtacctc cagacggtg cacttccgc ctcaagcgg 
      tacatttcc gtcttccag aactcgtcc atggtcttc 
      ggggtgttc atcagccac gtggtgggc gtcgccacc 
      accacgttc tacctcagc gtgtgctgc gccctaatc 
      cccaccctg cactacttc ttcgtcctg attgtcccc 
      gaaagtccc gttttcctg taccagacg agccacgtg 
      gccgcggcc aagtccctc gcgtggtac cggggggag 
      gggaacttt tacgaagac atggccaat ttgaagaag 
      gattgggac gccactcgg tacgacgcc gactcttac 
      gggtacatg tttacggcc aaggtggtg tacaggggg 
      ctgctgatt gtgctgggg gtcacgtac ttccaggcg 
      tttgggggc tacttcatc ttcctgttt tacgaagtt 
      cgggtttgg gctgaaggg agcgttatc tccccggtt 
      gtggactcg acactaggg gcctttttt ttcgtcgtt 
      agtaaactc ctgtggagt atttcgcac gagtttagg 
      tggaaaaac gtgcggccg ttgctcatt tccagttgt 
      tttttcagt gcgttggcg ttaacggct attgccgtg 
      tatttaatt ttggacaat tatgggttc aattttgtg 
      aagtggctg aactggatg cccacgtta gcgctggct 
      tgtttttta tttgctttc gaaatgggg ctaaattat 
      ttcccgaag gtgttaact tttgaatac atgccgttt 
      caagtgtac aaaagggcc tcaatgatc gtccagtcc 
      gtgcactgg cttatagct ttcatcaat atttactgc 
      ttcgcatcg agtttcacg acgattccg acgtacgtt 
      gcgtttatt attttggca gtacaaggc tatgttgga 
      acagtgttt tgttactat tttgtggta gaacctaga 
      ggaaaaagt cttgtgcaa gtacagcta gagttgggt 
      ggcaatcct attggaaaa agaggagcg ctttataac 
      cagaccaaa cgtacgcat gtaattaat taa
    mRNA sequence
    • >TC012020 RA
      atggcggtc acatttgaa attcatgtc ggacgaaac 
      cgagagtcc ttactccat gaccgaatc gctacttga 
      gctccgacg ccgcaagcc cagctacgg ccgcctctc 
      gacgcaact cttcgtcgg aaccctagc ttgcctctc 
      gtcgatctc cctgggcac gacgctggg gtggtcgca 
      cccggtgtc gcaaaacct ggtcatgaa ctacgagga 
      cgtggccga caacaagct caccgtcct gctgagcat 
      ctcgctgct ggggtgcgg cttcggcgt gagctcgtg 
      ctcgttcat gatcaacca ctggggccc caagagggg 
      catgcagtt catcggcgt gttctacat cctgacctg 
      gtggctcat cctcatccc gcgcagcgc ggtgcagct 
      gccggggcg cttcttcct cggctttct gggcatttc 
      gtactcgat gtgcggcga gaccttgta cctccagac 
      ggtgcactt ccgcctcaa gcggtacat ttccgtctt 
      ccagaactc gtccatggt cttcggggt gttcatcag 
      ccacgtggt gggcgtcgc caccaccac gttctacct 
      cagcgtgtg ctgcgccct aatccccac cctgcacta 
      cttcttcgt cctgattgt ccccgaaag tcccgtttt 
      cctgtacca gacgagcca cgtggccgc ggccaagtc 
      cctcgcgtg gtaccgggg ggaggggaa cttttacga 
      agacatggc caatttgaa gaaggattg ggacgccac 
      tcggtacga cgccgactc ttacgggta catgtttac 
      ggccaaggt ggtgtacag ggggctgct gattgtgct 
      gggggtcac gtacttcca ggcgtttgg gggctactt 
      catcttcct gttttacga agttcgggt ttgggctga 
      agggagcgt tatctcccc ggttgtgga ctcgacact 
      aggggcctt ttttttcgt cgttagtaa actcctgtg 
      gagtatttc gcacgagtt taggtggaa aaacgtgcg 
      gccgttgct catttccag ttgtttttt cagtgcgtt 
      ggcgttaac ggctattgc cgtgtattt aattttgga 
      caattatgg gttcaattt tgtgaagtg gctgaactg 
      gatgcccac gttagcgct ggcttgttt tttatttgc 
      tttcgaaat ggggctaaa ttatttccc gaaggtgtt 
      aacttttga atacatgcc gtttcaagt gtacaaaag 
      ggcctcaat gatcgtcca gtccgtgca ctggcttat 
      agctttcat caatattta ctgcttcgc atcgagttt 
      cacgacgat tccgacgta cgttgcgtt tattatttt 
      ggcagtaca aggctatgt tggaacagt gttttgtta 
      ctattttgt ggtagaacc tagaggaaa aagtcttgt 
      gcaagtaca gctagagtt gggtggcaa tcctattgg 
      aaaaagagg agcgcttta taaccagac caaacgtac 
      gcatgtaat taattaagg ttaaaacat ggtttgtgt 
      gaaggtgtg agtgaataa agcgaaatg ttagaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY