Status
Please wait ...
Gene information
General information
TC013806 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: 3754121..3755404
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
    TC013806
    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_09059

    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: 1 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    Fertility
    previtellogenic egg chamber potentially not present - Number of animals showing the phenotype: 2

    vitellogenic egg chamber degenerated - Number of animals showing the phenotype: 2
    mature egg not present - Number of animals showing the phenotype: 2
    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
    • >TC013806 RA
      MCNKRDKNN EEDEMDSDS DDSDVSMSD SDENESSDE 
      NESPDDQNE ANGGPEEEE EDEVIKAIR SAAEKKRDH 
      PPVIHCEDF ITDISFHPQ EDLLAVASI VGDIILYKY 
      SNEENSIIR TLEVHTKAC RDIEFSGDG ESLFSVAKD 
      KTIMISDVE SGKLSRFYD EAHESPIYS LLVIDENLF 
      ATGDDDGCV KLWDLRQNA SKPIYRTKK NEDYISDLV 
      TNEAKSLLL CSSGDGSLT TIDLNNRKI HMQSEEYDE 
      ELTCLGLFR SESKLLAGS SKGRLLLYN WNEFGLHSD 
      IFPGTKSAI NDLIPITEN IVVTACEDG VLRATHLFP 
      HRHLGIVGQ HDLSVEKLD ICNNGQFIA SSSHNNDIK 
      FWNIKYFED FEKVTHKHK KHEKKREMQ NNLPSSKVQ 
      NASDFFSGL C
    CDS sequence
    • >TC013806 RA
      atgtgcaac aaacgtgat aaaaacaat gaagaagac 
      gaaatggac tcggattcg gacgattcc gacgtcagc 
      atgtccgat tctgacgaa aacgagtct tctgatgaa 
      aacgagtcc cctgatgat cagaatgaa gcaaacggg 
      gggcccgaa gaagaggag gaagatgag gtgattaag 
      gccattcgg agcgccgct gagaagaag cgtgaccac 
      ccccctgtt atccactgc gaggatttt ataacggat 
      atttcgttt cacccccag gaggacttg ctagctgtt 
      gcgagtatc gtgggcgat attattctc tacaaatac 
      tctaacgag gaaaattcg attattcgc acgttggaa 
      gtgcatacg aaggcttgt cgagacatt gagtttagt 
      ggagacggt gaaagttta ttttccgtg gctaaagac 
      aagacaatt atgataagt gatgttgaa agtgggaaa 
      ttgtcccgg ttctacgac gaggcgcac gagtcaccg 
      atttatagt cttttggtg attgatgag aatttgttc 
      gcgactgga gacgacgac gggtgtgtg aaactgtgg 
      gatttgcgg caaaacgcc tcaaagccg atttatcga 
      actaagaaa aacgaggat tatatcagc gatttggta 
      acgaacgag gctaaaagt cttttgttg tgttcaagc 
      ggcgatggt tctcttaca acaatagat ttgaataat 
      cgaaaaatt cacatgcag tctgaagaa tacgacgag 
      gagctcact tgtctcggg cttttccgg tcggagagt 
      aaattattg gctgggtcg tccaaaggc cgattgttg 
      ctgtataat tggaatgag tttgggcta catagcgat 
      attttccca gggactaag tccgcaatt aatgatttg 
      attccaatc actgaaaat atcgtcgtg actgcgtgc 
      gaagatggg gttttaaga gcgacgcat ttgttccct 
      cacagacat ctaggcatc gtgggacaa catgacttg 
      tccgttgaa aaactagat atttgcaac aacggacag 
      tttattgcc tccagtagt cacaacaat gacatcaag 
      ttttggaac atcaagtat ttcgaagat tttgaaaag 
      gttacccat aaacataaa aagcatgag aagaagagg 
      gaaatgcag aataatttg ccctcctcc aaggtgcag 
      aacgcgtca gatttcttc agcggttta tgctga
    mRNA sequence
    • >TC013806 RA
      actgacttg aaaaatgtg caacaaacg tgataaaaa 
      caatgaaga agacgaaat ggactcgga ttcggacga 
      ttccgacgt cagcatgtc cgattctga cgaaaacga 
      gtcttctga tgaaaacga gtcccctga tgatcagaa 
      tgaagcaaa cggggggcc cgaagaaga ggaggaaga 
      tgaggtgat taaggccat tcggagcgc cgctgagaa 
      gaagcgtga ccacccccc tgttatcca ctgcgagga 
      ttttataac ggatatttc gtttcaccc ccaggagga 
      cttgctagc tgttgcgag tatcgtggg cgatattat 
      tctctacaa atactctaa cgaggaaaa ttcgattat 
      tcgcacgtt ggaagtgca tacgaaggc ttgtcgaga 
      cattgagtt tagtggaga cggtgaaag tttattttc 
      cgtggctaa agacaagac aattatgat aagtgatgt 
      tgaaagtgg gaaattgtc ccggttcta cgacgaggc 
      gcacgagtc accgattta tagtctttt ggtgattga 
      tgagaattt gttcgcgac tggagacga cgacgggtg 
      tgtgaaact gtgggattt gcggcaaaa cgcctcaaa 
      gccgattta tcgaactaa gaaaaacga ggattatat 
      cagcgattt ggtaacgaa cgaggctaa aagtctttt 
      gttgtgttc aagcggcga tggttctct tacaacaat 
      agatttgaa taatcgaaa aattcacat gcagtctga 
      agaatacga cgaggagct cacttgtct cgggctttt 
      ccggtcgga gagtaaatt attggctgg gtcgtccaa 
      aggccgatt gttgctgta taattggaa tgagtttgg 
      gctacatag cgatatttt cccagggac taagtccgc 
      aattaatga tttgattcc aatcactga aaatatcgt 
      cgtgactgc gtgcgaaga tggggtttt aagagcgac 
      gcatttgtt ccctcacag acatctagg catcgtggg 
      acaacatga cttgtccgt tgaaaaact agatatttg 
      caacaacgg acagtttat tgcctccag tagtcacaa 
      caatgacat caagttttg gaacatcaa gtatttcga 
      agattttga aaaggttac ccataaaca taaaaagca 
      tgagaagaa gagggaaat gcagaataa tttgccctc 
      ctccaaggt gcagaacgc gtcagattt cttcagcgg 
      tttatgctg aaaactata aatacagaa aactgtaac 
      tataaataa ataaatttt atgatt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY