Status
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Gene information
General information
TC013084 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_007420.3: 14248453..14249347
Sequence information
Transcripts / Proteins (3) 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
    TC013084
    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
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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_08426

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 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
    • >TC013084 RA
      MKRLCFYFP TILIIISGE NPCLAEEDE SRIVGGFEA 
      NKADYPYAV SLRDPNNHH FCGGTLIDH EHVVTAAHC 
      VAGGRSNVV VVGSDSLDK GGSTHKVIS TTVHPEYDP 
      KLVVNDIAL LKIEPVTSY KFSFPVRMQ SNLSDYENP 
      CYVMGWGLT EAGGKLSNK FKVAEVHPV SPTHCEEEW 
      KEAYNPNVI CTTSDGNSA CQGDSGGPL ICDEKFTGI 
      VSFGKPCAT GKPDVFTSV FAYNEWIDK NME
    • >TC013084 RB
      MKRLCFYFP TILIIISGE NPCLAAEED ESRIVGGFE 
      ANKADYPYA VSLRDPNNH HFCGGTLID HEHVVTAAH 
      CVAGGRSNV VVVGSDSLD KGGSTHKVI STTVHPEYD 
      PKLVVNDIA LLKIEPVTS YKFSFPVRM QSNLSDYEN 
      PCYVMGWGL TEAGGKLSN KFKVAEVHP VSPTHCEEE 
      WKEAYNPNV ICTTSDGNS ACQGDSGGP LICDEKFTG 
      IVSFGKPCA TGKPDVFTS VFAYNEWID KNME
    • >TC013084 RC
      MQSNLSDYE NPCYVMGWG LTEAGGKLS NKFKVAEVH 
      PVSPTHCEE EWKEAYNPN VICTTSDGN SACQGDSGG 
      PLICDEKFT GIVSFGKPC ATGKPDVFT SVFAYNEWI 
      DKNME
    CDS sequence
    • >TC013084 RA
      atgaagcgt ttgtgtttt tacttcccc acgatttta 
      attataatt tctggagaa aatccgtgt ttggcagaa 
      gaagacgaa tcgcgaatt gtgggcgga tttgaggca 
      aacaaagcc gactaccct tacgctgtg tccctgcgg 
      gacccgaac aaccaccac ttttgtggg ggcacctta 
      atcgaccac gaacacgtc gtgaccgcc gcccattgc 
      gtcgctggc ggccgctcg aacgtcgta gtcgtgggc 
      agtgactct ctagacaag ggtggaagc acccacaag 
      gtcatttcc acgacggtt caccccgaa tacgaccca 
      aaattggtc gtaaacgac atagcgctg ttgaaaata 
      gagccggtc acgtcgtac aaattttca tttccggtc 
      agaatgcaa tcaaattta tcggactat gaaaatccg 
      tgctacgtc atgggctgg ggcttaacg gaagccggg 
      ggaaaactc tccaataaa ttcaaagtg gcagaagtg 
      catcctgtg agtcccaca cactgcgag gaagaatgg 
      aaggaggcg tataatccc aacgtgatt tgtaccacc 
      agcgatgga aattccgcc tgtcagggg gattcgggg 
      gggccgtta atttgcgat gagaagttt accggaatt 
      gtgtctttt gggaagccg tgcgctacg ggaaagccg 
      gatgtgttt acctcggtt tttgcctac aacgagtgg 
      attgacaaa aatatggaa tga
    • >TC013084 RB
      atgaagcgt ttgtgtttt tacttcccc acgatttta 
      attataatt tctggagaa aatccgtgt ttggcagca 
      gaagaagac gaatcgcga attgtgggc ggatttgag 
      gcaaacaaa gccgactac ccttacgct gtgtccctg 
      cgggacccg aacaaccac cacttttgt gggggcacc 
      ttaatcgac cacgaacac gtcgtgacc gccgcccat 
      tgcgtcgct ggcggccgc tcgaacgtc gtagtcgtg 
      ggcagtgac tctctagac aagggtgga agcacccac 
      aaggtcatt tccacgacg gttcacccc gaatacgac 
      ccaaaattg gtcgtaaac gacatagcg ctgttgaaa 
      atagagccg gtcacgtcg tacaaattt tcatttccg 
      gtcagaatg caatcaaat ttatcggac tatgaaaat 
      ccgtgctac gtcatgggc tggggctta acggaagcc 
      gggggaaaa ctctccaat aaattcaaa gtggcagaa 
      gtgcatcct gtgagtccc acacactgc gaggaagaa 
      tggaaggag gcgtataat cccaacgtg atttgtacc 
      accagcgat ggaaattcc gcctgtcag ggggattcg 
      ggggggccg ttaatttgc gatgagaag tttaccgga 
      attgtgtct tttgggaag ccgtgcgct acgggaaag 
      ccggatgtg tttacctcg gtttttgcc tacaacgag 
      tggattgac aaaaatatg gaatga
    • >TC013084 RC
      atgcaatca aatttatcg gactatgaa aatccgtgc 
      tacgtcatg ggctggggc ttaacggaa gccggggga 
      aaactctcc aataaattc aaagtggca gaagtgcat 
      cctgtgagt cccacacac tgcgaggaa gaatggaag 
      gaggcgtat aatcccaac gtgatttgt accaccagc 
      gatggaaat tccgcctgt cagggggat tcggggggg 
      ccgttaatt tgcgatgag aagtttacc ggaattgtg 
      tcttttggg aagccgtgc gctacggga aagccggat 
      gtgtttacc tcggttttt gcctacaac gagtggatt 
      gacaaaaat atggaatga
    mRNA sequence
    • >TC013084 RA
      caagtacaa aatgaagcg tttgtgttt ttacttccc 
      cacgatttt aattataat ttctggaga aaatccgtg 
      tttggcaga agaagacga atcgcgaat tgtgggcgg 
      atttgaggc aaacaaagc cgactaccc ttacgctgt 
      gtccctgcg ggacccgaa caaccacca cttttgtgg 
      gggcacctt aatcgacca cgaacacgt cgtgaccgc 
      cgcccattg cgtcgctgg cggccgctc gaacgtcgt 
      agtcgtggg cagtgactc tctagacaa gggtggaag 
      cacccacaa ggtcatttc cacgacggt tcaccccga 
      atacgaccc aaaattggt cgtaaacga catagcgct 
      gttgaaaat agagccggt cacgtcgta caaattttc 
      atttccggt cagaatgca atcaaattt atcggacta 
      tgaaaatcc gtgctacgt catgggctg gggcttaac 
      ggaagccgg gggaaaact ctccaataa attcaaagt 
      ggcagaagt gcatcctgt gagtcccac acactgcga 
      ggaagaatg gaaggaggc gtataatcc caacgtgat 
      ttgtaccac cagcgatgg aaattccgc ctgtcaggg 
      ggattcggg ggggccgtt aatttgcga tgagaagtt 
      taccggaat tgtgtcttt tgggaagcc gtgcgctac 
      gggaaagcc ggatgtgtt tacctcggt ttttgccta 
      caacgagtg gattgacaa aaatatgga atgattttt 
      cttcgaaaa taaaaactt gaagaaatt
    • >TC013084 RB
      caagtacaa aatgaagcg tttgtgttt ttacttccc 
      cacgatttt aattataat ttctggaga aaatccgtg 
      tttggcagc agaagaaga cgaatcgcg aattgtggg 
      cggatttga ggcaaacaa agccgacta cccttacgc 
      tgtgtccct gcgggaccc gaacaacca ccacttttg 
      tgggggcac cttaatcga ccacgaaca cgtcgtgac 
      cgccgccca ttgcgtcgc tggcggccg ctcgaacgt 
      cgtagtcgt gggcagtga ctctctaga caagggtgg 
      aagcaccca caaggtcat ttccacgac ggttcaccc 
      cgaatacga cccaaaatt ggtcgtaaa cgacatagc 
      gctgttgaa aatagagcc ggtcacgtc gtacaaatt 
      ttcatttcc ggtcagaat gcaatcaaa tttatcgga 
      ctatgaaaa tccgtgcta cgtcatggg ctggggctt 
      aacggaagc cgggggaaa actctccaa taaattcaa 
      agtggcaga agtgcatcc tgtgagtcc cacacactg 
      cgaggaaga atggaagga ggcgtataa tcccaacgt 
      gatttgtac caccagcga tggaaattc cgcctgtca 
      gggggattc gggggggcc gttaatttg cgatgagaa 
      gtttaccgg aattgtgtc ttttgggaa gccgtgcgc 
      tacgggaaa gccggatgt gtttacctc ggtttttgc 
      ctacaacga gtggattga caaaaatat ggaatgatt 
      tttcttcga aaataaaaa cttgaagaa att
    • >TC013084 RC
      ccacgaaca cgtcgtgac cgccgccca ttgcgtcgc 
      tggcggccg ctcgaacgt cgtagtcgt gggcagtga 
      ctctctaga caagggtgg aagcaccca caaggtcat 
      ttccacgac ggttcaccc cgaatacga cccaaaatt 
      ggtcgtaaa cgacatagc gctgttgaa aatagagcc 
      ggtcacgtc gtacaaatt ttcatttcc ggtcagaat 
      gcaatcaaa tttatcgga ctatgaaaa tccgtgcta 
      cgtcatggg ctggggctt aacggaagc cgggggaaa 
      actctccaa taaattcaa agtggcaga agtgcatcc 
      tgtgagtcc cacacactg cgaggaaga atggaagga 
      ggcgtataa tcccaacgt gatttgtac caccagcga 
      tggaaattc cgcctgtca gggggattc gggggggcc 
      gttaatttg cgatgagaa gtttaccgg aattgtgtc 
      ttttgggaa gccgtgcgc tacgggaaa gccggatgt 
      gtttacctc ggtttttgc ctacaacga gtggattga 
      caaaaatat ggaatgatt tttcttcga aaataaaaa 
      cttgaagaa att
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY