Status
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Gene information
General information
TC015341 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_007421.3: 215523..217492
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
    TC015341
    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
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    Email
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    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.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_02465

    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: 10.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 1 (9 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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC015341 RA
      MSETNRISQ LFKDQNILI TGATGFLGK VLVEKFLRC 
      TEVKKLYLL VRSKKGKNP QERLDELYS NMLFDVLKR 
      ENPSVLKKC LIIPGDITQ EGLGISTPN RILLQEEID 
      FIFHSAAST RFDDSVKTA VKINTRSTK YVLDLAQEC 
      KNLKLLVHV STAYAFPNV KVLHEKSYN PPKNPHEVL 
      EMIKFGKDD DIEELLGDA PNTYTFSKA LAEALVVEK 
      MGIVPSIIV RPSIVCPTL AEPIPGWVN NLQGPMGLF 
      VGAGKGIIR SMYMQGDSY ADFVPADVT INGMLSASW 
      YYLSHDQNA QFYNITSSS QYNFTWEEL ITTGKSVIF 
      NEVPFNGVV WYPGGSIKT VRWVHELCF YLFQLLPAI 
      LIDVILVLL RYKPVLYQI QRRIQKGNE VFEYYTNRA 
      WDFSNRRAN DVKGIMNEI ERKVYKIDG EGFDLKDYL 
      TKCMWCLRR NNLKESDET VPAARRHMK VMWAVDIVV 
      KILFLVVLL YYGYQWYQT LTRTILRY
    CDS sequence
    • >TC015341 RA
      atgagtgaa acaaaccga atttctcaa cttttcaaa 
      gaccaaaac attctaata acaggagcc actggtttt 
      ttgggcaaa gtgctagtg gagaaattt ttacgatgc 
      accgaagtg aaaaaatta tatttgttg gttcggagc 
      aagaaagga aaaaatcca caagagcgt ctcgacgag 
      ctttatagt aacatgctt tttgacgtt cttaaacgt 
      gaaaatccg tccgttctt aaaaaatgt ctgattatt 
      ccgggcgat atcactcaa gaaggcctc ggaatctcc 
      acccccaac cgcatcctt ctccaggaa gaaattgat 
      tttatattt cacagtgcc gcctccacg cgtttcgac 
      gactcggtc aaaactgcc gttaaaata aacaccaga 
      agtaccaaa tacgtgctc gacttggca caagaatgc 
      aaaaactta aaacttttg gtccacgtt tctacagct 
      tatgctttt ccaaacgtc aaggtacta catgaaaaa 
      tcgtacaac ccaccaaaa aacccacat gaagtactt 
      gaaatgatc aaatttggc aaagacgat gatattgaa 
      gagctactt ggtgacgca cccaacact tatactttc 
      agcaaggcg ttagccgag gcattagtt gtggaaaaa 
      atgggcata gtcccatca ataatagta cgaccttcc 
      attgtgtgt cccaccttg gccgaaccc attccagga 
      tgggtcaac aatctgcag ggtcccatg ggtttgttt 
      gtgggtgct gggaaaggt ataatccgc tccatgtac 
      atgcaaggt gactcgtac gcggatttt gtaccggcg 
      gatgtgacc atcaatggt atgctttct gcctcatgg 
      tactaccta agtcacgac caaaacgcc cagttttac 
      aacataacg tcttcatca caatacaat tttacatgg 
      gaggagctc ataaccacg ggcaaaagt gttattttt 
      aatgaagta ccatttaat ggagttgtg tggtaccct 
      ggtgggtcg atcaaaaca gtacgatgg gtgcacgag 
      ttgtgtttt tatctcttt caactttta ccagcgatt 
      ttgattgac gtaattttg gtactactt cggtacaaa 
      ccagttttg taccaaatt cagagaaga atacaaaaa 
      gggaatgaa gtttttgag tattataca aaccgggct 
      tgggatttt agtaataga agagccaat gatgtcaaa 
      ggtattatg aatgagatt gagagaaaa gtctacaaa 
      attgatggt gaagggttt gacttgaag gactattta 
      acgaagtgt atgtggtgt ctcagacga aataatttg 
      aaggaaagt gatgagaca gtacctgcg gctagacgt 
      catatgaaa gtaatgtgg gccgtggat attgtagtc 
      aaaatacta ttcctagta gtactactg tattatggg 
      taccagtgg taccaaaca cttactcgt accatttta 
      agatactaa
    mRNA sequence
    • >TC015341 RA
      ccaacgtcc aatatttaa aacaggcta agaatacag 
      tactgcagt ttgattctt gcctttgta ttgtttaat 
      taaatgaaa aatgagtga aacaaaccg aatttctca 
      acttttcaa agaccaaaa cattctaat aacaggagc 
      cactggttt tttgggcaa agtgctagt ggagaaatt 
      tttacgatg caccgaagt gaaaaaatt atatttgtt 
      ggttcggag caagaaagg aaaaaatcc acaagagcg 
      tctcgacga gctttatag taacatgct ttttgacgt 
      tcttaaacg tgaaaatcc gtccgttct taaaaaatg 
      tctgattat tccgggcga tatcactca agaaggcct 
      cggaatctc cacccccaa ccgcatcct tctccagga 
      agaaattga ttttatatt tcacagtgc cgcctccac 
      gcgtttcga cgactcggt caaaactgc cgttaaaat 
      aaacaccag aagtaccaa atacgtgct cgacttggc 
      acaagaatg caaaaactt aaaactttt ggtccacgt 
      ttctacagc ttatgcttt tccaaacgt caaggtact 
      acatgaaaa atcgtacaa cccaccaaa aaacccaca 
      tgaagtact tgaaatgat caaatttgg caaagacga 
      tgatattga agagctact tggtgacgc acccaacac 
      ttatacttt cagcaaggc gttagccga ggcattagt 
      tgtggaaaa aatgggcat agtcccatc aataatagt 
      acgaccttc cattgtgtg tcccacctt ggccgaacc 
      cattccagg atgggtcaa caatctgca gggtcccat 
      gggtttgtt tgtgggtgc tgggaaagg tataatccg 
      ctccatgta catgcaagg tgactcgta cgcggattt 
      tgtaccggc ggatgtgac catcaatgg tatgctttc 
      tgcctcatg gtactacct aagtcacga ccaaaacgc 
      ccagtttta caacataac gtcttcatc acaatacaa 
      ttttacatg ggaggagct cataaccac gggcaaaag 
      tgttatttt taatgaagt accatttaa tggagttgt 
      gtggtaccc tggtgggtc gatcaaaac agtacgatg 
      ggtgcacga gttgtgttt ttatctctt tcaactttt 
      accagcgat tttgattga cgtaatttt ggtactact 
      tcggtacaa accagtttt gtaccaaat tcagagaag 
      aatacaaaa agggaatga agtttttga gtattatac 
      aaaccgggc ttgggattt tagtaatag aagagccaa 
      tgatgtcaa aggtattat gaatgagat tgagagaaa 
      agtctacaa aattgatgg tgaagggtt tgacttgaa 
      ggactattt aacgaagtg tatgtggtg tctcagacg 
      aaataattt gaaggaaag tgatgagac agtacctgc 
      ggctagacg tcatatgaa agtaatgtg ggccgtgga 
      tattgtagt caaaatact attcctagt agtactact 
      gtattatgg gtaccagtg gtaccaaac acttactcg 
      taccatttt aagatacta aaatgtatg gtatggttg 
      tatattttt tgtagtact gccaataaa acacaatta 
      gttag
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY