Status
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Gene information
General information
TC000040 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_007418.3: 10664467..10691834
Sequence information
Transcripts / Proteins (2) 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
    TC000040
    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 *
    {{ blurReferenceResult }}
    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
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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_00004

    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: 80.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 4 (9 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 7 (11 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: 100.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 10 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC000040 RA
      MAANVDEEQ SLRECEAYV QTHNIQQIL KDCIVQLCV 
      NRPANPIAF LREHFQKLE REQALDAKQ QVTSPEDTE 
      DLSPLPTHT QQPVRRRGG ISAEPVSEE DATSYVKKV 
      VPKDYKTMA ALSKAIAKN VLFSHLDEN ERSDIFDAM 
      FPVTCLPGE AIIQQGDEG DNFYVIDQG EVEVYVNNE 
      LVTTIGDGG SFGELALIY GTPRAATVK AKTDVKLWG 
      IDRDSYRRI LMGSTIRKR KMYEEFLSR VSILENLDK 
      WERLTVADA LEPVGFEDG ETIVRQGEP GDDFYIIVE 
      GTAIVKQNR AEGEEPTEV GRLGPSDYF GEIALLLDR 
      PRAATVVAC GPLKCVKLD RARFERVLG LCADILKRN 
      ITQYNSFVS LSV
    • >TC000040 RB
      MPQEQALDA KQQVTSPED TEDLSPLPT HTQQPVRRR 
      GGISAEPVS EEDATSYVK KVVPKDYKT MAALSKAIA 
      KNVLFSHLD ENERSDIFD AMFPVTCLP GEAIIQQGD 
      EGDNFYVID QGEVEVYVN NELVTTIGD GGSFGELAL 
      IYGTPRAAT VKAKTDVKL WGIDRDSYR RILMGSTIR 
      KRKMYEEFL SRVSILENL DKWERLTVA DALEPVGFE 
      DGETIVRQG EPGDDFYII VEGTAIVKQ NRAEGEEPT 
      EVGRLGPSD YFGEIALLL DRPRAATVV ACGPLKCVK 
      LDRARFERV LGLCADILK RNITQYNSF VSLSV
    CDS sequence
    • >TC000040 RA
      atggcagcg aatgttgac gaagaacaa tcactgcgc 
      gaatgtgag gcttatgtt caaactcat aatatccaa 
      caaattctg aaagattgt attgttcaa ttatgtgta 
      aaccgtcca gccaatccc attgcgttt ttacgggaa 
      cattttcaa aaattggaa cgggagcaa gctctagat 
      gccaaacaa caagtgact tcaccggaa gacaccgaa 
      gacctctcc cccttgccc acccacacc cagcaacct 
      gttcgtcgc cgtggcggc atctccgcc gagccggtg 
      tctgaggaa gatgccacc agttatgtc aaaaaagtc 
      gtccccaag gactacaaa acgatggca gcattgtcg 
      aaagccatc gctaaaaac gtcctcttt tcacatctc 
      gacgaaaac gaacgttcg gacattttc gatgccatg 
      tttccagtg acatgtcta ccgggcgaa gccattatc 
      cagcaaggt gacgaaggc gataatttc tacgtcatc 
      gaccaaggc gaagtcgag gtgtacgtt aataacgaa 
      ctagtgacc actataggc gatggtggc agtttcggc 
      gaacttgcc ctcatttat ggtacgcca cgtgcggca 
      acggtcaaa gcgaaaacc gatgttaaa ctttggggg 
      attgaccga gattcgtac aggaggatt ctgatgggt 
      tcgacgata cgtaagcgc aaaatgtac gaagagttt 
      ttgtcaaga gtgtcaata ttggagaat cttgacaag 
      tgggagcgt ctcacagtg gctgatgca ctagaaccg 
      gtgggtttt gaagatggt gagacgatt gtgagacag 
      ggggagcca ggagacgat ttttatatc atcgtcgaa 
      ggtacagcg attgttaaa cagaacaga gcggaaggg 
      gaagaaccg acggaagtt gggagattg ggaccaagc 
      gattatttc ggcgaaatt gcccttttg ctggatagg 
      ccacgagcc gccactgtt gtcgcttgt ggacctttg 
      aaatgcgtc aaactagat agagcaagg tttgagcga 
      gtcctgggc ctgtgtgcg gacattttg aagaggaat 
      atcacacag tataacagc ttcgtgtca ctttcggtt 
      taa
    • >TC000040 RB
      atgccccag gagcaagct ctagatgcc aaacaacaa 
      gtgacttca ccggaagac accgaagac ctctccccc 
      ttgcccacc cacacccag caacctgtt cgtcgccgt 
      ggcggcatc tccgccgag ccggtgtct gaggaagat 
      gccaccagt tatgtcaaa aaagtcgtc cccaaggac 
      tacaaaacg atggcagca ttgtcgaaa gccatcgct 
      aaaaacgtc ctcttttca catctcgac gaaaacgaa 
      cgttcggac attttcgat gccatgttt ccagtgaca 
      tgtctaccg ggcgaagcc attatccag caaggtgac 
      gaaggcgat aatttctac gtcatcgac caaggcgaa 
      gtcgaggtg tacgttaat aacgaacta gtgaccact 
      ataggcgat ggtggcagt ttcggcgaa cttgccctc 
      atttatggt acgccacgt gcggcaacg gtcaaagcg 
      aaaaccgat gttaaactt tgggggatt gaccgagat 
      tcgtacagg aggattctg atgggttcg acgatacgt 
      aagcgcaaa atgtacgaa gagtttttg tcaagagtg 
      tcaatattg gagaatctt gacaagtgg gagcgtctc 
      acagtggct gatgcacta gaaccggtg ggttttgaa 
      gatggtgag acgattgtg agacagggg gagccagga 
      gacgatttt tatatcatc gtcgaaggt acagcgatt 
      gttaaacag aacagagcg gaaggggaa gaaccgacg 
      gaagttggg agattggga ccaagcgat tatttcggc 
      gaaattgcc cttttgctg gataggcca cgagccgcc 
      actgttgtc gcttgtgga cctttgaaa tgcgtcaaa 
      ctagataga gcaaggttt gagcgagtc ctgggcctg 
      tgtgcggac attttgaag aggaatatc acacagtat 
      aacagcttc gtgtcactt tcggtttaa
    mRNA sequence
    • >TC000040 RA
      agaaccaaa ataaaaata gcagcaact gtcaactca 
      cgttctgtt ctttttatt aacattaac aaacgtttt 
      aaaaagctc cgtgaagtg caattgtaa cattattaa 
      gccagttgt atccgtaaa tcaattcaa gtgtgtgaa 
      aaaatggca gcgaatgtt gacgaagaa caatcactg 
      cgcgaatgt gaggcttat gttcaaact cataatatc 
      caacaaatt ctgaaagat tgtattgtt caattatgt 
      gtaaaccgt ccagccaat cccattgcg tttttacgg 
      gaacatttt caaaaattg gaacgggag caagctcta 
      gatgccaaa caacaagtg acttcaccg gaagacacc 
      gaagacctc tcccccttg cccacccac acccagcaa 
      cctgttcgt cgccgtggc ggcatctcc gccgagccg 
      gtgtctgag gaagatgcc accagttat gtcaaaaaa 
      gtcgtcccc aaggactac aaaacgatg gcagcattg 
      tcgaaagcc atcgctaaa aacgtcctc ttttcacat 
      ctcgacgaa aacgaacgt tcggacatt ttcgatgcc 
      atgtttcca gtgacatgt ctaccgggc gaagccatt 
      atccagcaa ggtgacgaa ggcgataat ttctacgtc 
      atcgaccaa ggcgaagtc gaggtgtac gttaataac 
      gaactagtg accactata ggcgatggt ggcagtttc 
      ggcgaactt gccctcatt tatggtacg ccacgtgcg 
      gcaacggtc aaagcgaaa accgatgtt aaactttgg 
      gggattgac cgagattcg tacaggagg attctgatg 
      ggttcgacg atacgtaag cgcaaaatg tacgaagag 
      tttttgtca agagtgtca atattggag aatcttgac 
      aagtgggag cgtctcaca gtggctgat gcactagaa 
      ccggtgggt tttgaagat ggtgagacg attgtgaga 
      cagggggag ccaggagac gatttttat atcatcgtc 
      gaaggtaca gcgattgtt aaacagaac agagcggaa 
      ggggaagaa ccgacggaa gttgggaga ttgggacca 
      agcgattat ttcggcgaa attgccctt ttgctggat 
      aggccacga gccgccact gttgtcgct tgtggacct 
      ttgaaatgc gtcaaacta gatagagca aggtttgag 
      cgagtcctg ggcctgtgt gcggacatt ttgaagagg 
      aatatcaca cagtataac agcttcgtg tcactttcg 
      gtttaactg aattgaatc attttatcg tgagtcgcg 
      aaattttac gtaggaaca gtattgttt attaagtac 
      aagtcgaaa ttttttgca gttaagcga ctcagccaa 
      attgaaagt cttcattga tgatagctt tagcatact 
      tatttattt aaaatccct agttgtttt gatataaat 
      tttattgtt gttttgcag gagaaatat tttatttat 
      ggactttat tcgtgtaat tgccacaat ttgtttaat 
      tgcgattaa aacctgacc aactggtgg taattaaca 
      taatttctg tacatcctt ctcgctcta aatagtatc 
      ttaagtaca acaagtaaa tcatcgacg ggaaatgtt 
      acatttgtg aaagtttat gggattgaa atggttgtt 
      tctagtttg gttttcacg atcttttag caatatttg 
      tattatttt tgttagttt aaggaataa agtgtacca 
      acaattaca cgcatccaa ttgtttgaa attttctaa 
      gaaaattta attggatta cttttataa ccattgtaa 
      ataactgtc taacaataa aacgaagac ttccttggt 
      ttactgtgt taat
    • >TC000040 RB
      caactttag tagtgaccg gagagtggc ggtgtggtc 
      gttattgct gcgctttcc tcggtatca tatccagaa 
      gtggagtgc gaccttaat cttaaattt gtgtaaggt 
      ttcttggac gtctgttgc acgtcataa tgccccagg 
      agcaagctc tagatgcca aacaacaag tgacttcac 
      cggaagaca ccgaagacc tctccccct tgcccaccc 
      acacccagc aacctgttc gtcgccgtg gcggcatct 
      ccgccgagc cggtgtctg aggaagatg ccaccagtt 
      atgtcaaaa aagtcgtcc ccaaggact acaaaacga 
      tggcagcat tgtcgaaag ccatcgcta aaaacgtcc 
      tcttttcac atctcgacg aaaacgaac gttcggaca 
      ttttcgatg ccatgtttc cagtgacat gtctaccgg 
      gcgaagcca ttatccagc aaggtgacg aaggcgata 
      atttctacg tcatcgacc aaggcgaag tcgaggtgt 
      acgttaata acgaactag tgaccacta taggcgatg 
      gtggcagtt tcggcgaac ttgccctca tttatggta 
      cgccacgtg cggcaacgg tcaaagcga aaaccgatg 
      ttaaacttt gggggattg accgagatt cgtacagga 
      ggattctga tgggttcga cgatacgta agcgcaaaa 
      tgtacgaag agtttttgt caagagtgt caatattgg 
      agaatcttg acaagtggg agcgtctca cagtggctg 
      atgcactag aaccggtgg gttttgaag atggtgaga 
      cgattgtga gacaggggg agccaggag acgattttt 
      atatcatcg tcgaaggta cagcgattg ttaaacaga 
      acagagcgg aaggggaag aaccgacgg aagttggga 
      gattgggac caagcgatt atttcggcg aaattgccc 
      ttttgctgg ataggccac gagccgcca ctgttgtcg 
      cttgtggac ctttgaaat gcgtcaaac tagatagag 
      caaggtttg agcgagtcc tgggcctgt gtgcggaca 
      ttttgaaga ggaatatca cacagtata acagcttcg 
      tgtcacttt cggtttaac tgaattgaa tcattttat 
      cgtgagtcg cgaaatttt acgtaggaa cagtattgt 
      ttattaagt acaagtcga aattttttg cagttaagc 
      gactcagcc aaattgaaa gtcttcatt gatgatagc 
      tttagcata cttatttat ttaaaatcc ctagttgtt 
      ttgatataa attttattg ttgttttgc aggagaaat 
      attttattt atggacttt attcgtgta attgccaca 
      atttgttta attgcgatt aaaacctga ccaactggt 
      ggtaattaa cataatttc tgtacatcc ttctcgctc 
      taaatagta tcttaagta caacaagta aatcatcga 
      cgggaaatg ttacatttg tgaaagttt atgggattg 
      aaatggttg tttctagtt tggttttca cgatctttt 
      agcaatatt tgtattatt tttgttagt ttaaggaat 
      aaagtgtac caacaatta cacgcatcc aattgtttg 
      aaattttct aagaaaatt taattggat tacttttat 
      aaccattgt aaataactg tctaacaat aaaacgaag 
      acttccttg gtttactgt gttaat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY