Status
Please wait ...
Gene information
General information
TC000804 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_007417.3: 5875019..5877189
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
    TC000804
    Gene ontology

    GO terms for Tribolium

    • {{ goTerm.term }}
      ({{ goTerm.evidence }}){{ goTerm.evidenceTooltip }}
      {{goTerm.showAll ? '[-]' : '[+]'}}
      Status: {{ goTerm.status }}
      Evidence: {{ goTerm.evidence }} ({{ goTerm.evidenceTooltip }})
      Reference: {{ goTerm.referenceText }}
      Quotation: {{ goTerm.quotation }}
      Submitter: {{ goTerm.name }}

    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 *
    {{ blurIdResult }}
    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
    {{ blurEvidenceResult }}
    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
    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.
      {{ unavailableText }}

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_09610

    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 (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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
    • >TC000804 RA
      MLVLRNVLS LSLVLGLAT SATLFQDAP VVQLENGQV 
      RGRVDTTVG EGRTYYSFR GIPFAEPPI GDLRFEPPV 
      PKSNWDGVW DATEDRSDC VQGSNTVMG SEDCLFINV 
      YTPKQPSSS CELLPTMVW IYGGGFEGG SSSYNLYGP 
      DYLLEKDVV VVTFNYRLG VLGFLSTGD DVAPGNNGL 
      KDQVLALQW VRDNIKNFC GNPEQVTLA GQSAGSASV 
      AYHLQSPLS EGLFHRAIL QSGVSLSLW AYSRRVPQV 
      VGQLAQALE IDNSTSRSI VDSLKQLNT TYLQTKASA 
      TISEALISN NPRDGFAMG PVSEHDHPG AFFSGRSHE 
      LLSNKKFHK VPIVIGFNS LEGTFNFEL LFRLYLVKF 
      DLDNTMLLP IDMNIDSSK KSEAAKKLK QHYFGWKPV 
      SMANVELMK FLSDDQFGR SITEFGRLL KDDAPVYFY 
      RFSYEGGLW GNYNRTNSG VTHSEELGY YWVSNHQPS 
      SDHDFVIRT RMVKLWTNF IKYANPTPE QDPVLQDII 
      WKPFNNSLS FVDIGEHLV VGESPEQEH MGFWDSFYG 
      QYGNPPYTT Y
    CDS sequence
    • >TC000804 RA
      atgttagtc ctaagaaac gtactttct ctttccctt 
      gttttgggt cttgcgact agtgccact ttgtttcaa 
      gatgctcca gtagtacaa cttgaaaat ggtcaagtg 
      agaggaaga gtggacaca acagtggga gaaggccga 
      acttattat tctttccga ggaattccc tttgccgag 
      cctccaatt ggcgatctc cgatttgaa ccccctgtc 
      cctaaaagc aactgggat ggcgtctgg gacgccaca 
      gaagaccga tcagattgt gttcaaggc tcaaacact 
      gtgatgggt tccgaggat tgtctcttc ataaatgtt 
      tacacgcca aagcaacca tcgtcctcg tgtgagttg 
      cttcccacc atggtctgg atttacggt ggtgggttt 
      gaaggaggc tcctcctct tacaacctc tacgggcct 
      gactatctt ctcgagaag gatgttgtt gttgttacg 
      ttcaattac cgtttagga gttttggga tttctgagt 
      actggtgac gacgtagct cctgggaat aacggtctc 
      aaagaccag gtcctggcc cttcagtgg gtgagagac 
      aacataaag aatttctgt gggaaccct gaacaggtc 
      actcttgct ggccaaagt gccggatct gcgtcagtg 
      gcctatcac ctccaatca cccttatct gaaggactt 
      ttccatagg gctatacta cagtcaggt gtgtctcta 
      agtctgtgg gcttacagt cgacgagtt cctcaagtt 
      gttggccaa ctggcccaa gctttggaa attgataac 
      tcaacaagt cgctcgatt gttgacagt ttgaagcaa 
      cttaacacc acctacctc caaactaaa gcgtctgcg 
      accatatcc gaagcccta atctcgaac aatcccaga 
      gacgggttt gccatgggc cctgtgagt gagcatgac 
      caccctggt gcattcttt tccggaaga agccacgaa 
      ctactatcc aataaaaaa ttccataaa gtaccaata 
      gtcattggg ttcaattct ctggaaggg acatttaat 
      ttcgaactt cttttccgt ctctatctg gtcaaattt 
      gatctcgac aataccatg ttgttgcca attgacatg 
      aatattgac agcagcaag aaatcggaa gctgccaaa 
      aaattaaag caacattat ttcggctgg aagcctgtt 
      agtatggcc aacgtcgag ttgatgaag ttcctcagc 
      gatgaccaa tttgggcga tctattaca gaatttggc 
      cggcttttg aaagatgac gcccctgta tatttctac 
      cggttttca tacgagggg ggattgtgg ggtaattac 
      aaccgaact aactcaggt gtaacacat agtgaagaa 
      ttgggttac tactgggtt tccaatcat caaccatcg 
      tctgatcac gattttgtt atacgcact agaatggta 
      aagttgtgg actaacttt atcaaatat gcgaatccc 
      actccggag caagaccct gtgttgcaa gatattatc 
      tggaaaccc tttaataat agtttgtct tttgtggat 
      attggagaa catttggtt gttggtgaa tctccagaa 
      caggaacat atggggttc tgggatagc ttttatggg 
      caatatgga aacccacct tatactacg tattga
    mRNA sequence
    • >TC000804 RA
      cttatttag tccagtaag taaaatgtt agtcctaag 
      aaacgtact ttctctttc ccttgtttt gggtcttgc 
      gactagtgc cactttgtt tcaagatgc tccagtagt 
      acaacttga aaatggtca agtgagagg aagagtgga 
      cacaacagt gggagaagg ccgaactta ttattcttt 
      ccgaggaat tccctttgc cgagcctcc aattggcga 
      tctccgatt tgaaccccc tgtccctaa aagcaactg 
      ggatggcgt ctgggacgc cacagaaga ccgatcaga 
      ttgtgttca aggctcaaa cactgtgat gggttccga 
      ggattgtct cttcataaa tgtttacac gccaaagca 
      accatcgtc ctcgtgtga gttgcttcc caccatggt 
      ctggattta cggtggtgg gtttgaagg aggctcctc 
      ctcttacaa cctctacgg gcctgacta tcttctcga 
      gaaggatgt tgttgttgt tacgttcaa ttaccgttt 
      aggagtttt gggatttct gagtactgg tgacgacgt 
      agctcctgg gaataacgg tctcaaaga ccaggtcct 
      ggcccttca gtgggtgag agacaacat aaagaattt 
      ctgtgggaa ccctgaaca ggtcactct tgctggcca 
      aagtgccgg atctgcgtc agtggccta tcacctcca 
      atcaccctt atctgaagg acttttcca tagggctat 
      actacagtc aggtgtgtc tctaagtct gtgggctta 
      cagtcgacg agttcctca agttgttgg ccaactggc 
      ccaagcttt ggaaattga taactcaac aagtcgctc 
      gattgttga cagtttgaa gcaacttaa caccaccta 
      cctccaaac taaagcgtc tgcgaccat atccgaagc 
      cctaatctc gaacaatcc cagagacgg gtttgccat 
      gggccctgt gagtgagca tgaccaccc tggtgcatt 
      cttttccgg aagaagcca cgaactact atccaataa 
      aaaattcca taaagtacc aatagtcat tgggttcaa 
      ttctctgga agggacatt taatttcga acttctttt 
      ccgtctcta tctggtcaa atttgatct cgacaatac 
      catgttgtt gccaattga catgaatat tgacagcag 
      caagaaatc ggaagctgc caaaaaatt aaagcaaca 
      ttatttcgg ctggaagcc tgttagtat ggccaacgt 
      cgagttgat gaagttcct cagcgatga ccaatttgg 
      gcgatctat tacagaatt tggccggct tttgaaaga 
      tgacgcccc tgtatattt ctaccggtt ttcatacga 
      ggggggatt gtggggtaa ttacaaccg aactaactc 
      aggtgtaac acatagtga agaattggg ttactactg 
      ggtttccaa tcatcaacc atcgtctga tcacgattt 
      tgttatacg cactagaat ggtaaagtt gtggactaa 
      ctttatcaa atatgcgaa tcccactcc ggagcaaga 
      ccctgtgtt gcaagatat tatctggaa accctttaa 
      taatagttt gtcttttgt ggatattgg agaacattt 
      ggttgttgg tgaatctcc agaacagga acatatggg 
      gttctggga tagctttta tgggcaata tggaaaccc 
      accttatac tacgtattg atttcaaat tgttgacat 
      ttctgtaaa aatcgcaag tctaataaa ataataaaa 
      acgcc
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY