Status
Please wait ...
Gene information
General information
TC004662 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_007416.3: 1131837..1133946
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
    TC004662
    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_09955

    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


    adult nutritional state potentially bad (cachectic) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    Fertility
    mature egg not present - Number of animals showing the phenotype: 4

    egg chamber not present - Number of animals showing the phenotype: 4
    tropharium structure irregular - Number of animals showing the phenotype: 4

    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
    • >TC004662 RA
      MSDAEDDFM CEDEEDYGL EYSEDSNSE PDVDLENQY 
      YNSKSLKEE EPKAALASF QKVLDLESG EKGEWGFKA 
      LKQMIKINF KLGNFEEMM TRYKQLLTY IKSAVTRNH 
      SEKSINSIL DYISTSKNM ELLQNFYET TLEALKDAK 
      NDRLWFKTN TKLGKLYYD RGDFNKLAK ILKQLHQSC 
      QTDDGEDDL KKGTQLLEI YALEIQMYT AQKNNKKLK 
      TLYEQSLHI KSAIPHPLI MGVIRECGG KMHLREDEF 
      EKAHTDFFE AFKNYDESG SPRRTTCLK YLVLANMLM 
      KSGINPFDS QEAKPYKND PEILAMTNL VNAYQTNDI 
      NEFESILKQ NRQNIMDDP FIREHIEDL LRNIRTQVL 
      IKLIKPYTR IQIPFISTE LNIDVSEVE NLLVSCILD 
      NTIEGRIDQ VNQVLFLER AAVNMARYN ALDRWTNQL 
      NTLHLSIIN KMA
    CDS sequence
    • >TC004662 RA
      atgtctgat gctgaggac gattttatg tgcgaagat 
      gaggaggat tatggcttg gaatattca gaggatagt 
      aattcggaa ccggacgtg gatctggaa aatcagtac 
      tataatagc aaatctttg aaagaagag gagcccaaa 
      gcggcgcta gcttctttc cagaaagtc ctggacctg 
      gaaagcggc gagaaaggc gagtggggc ttcaaagcc 
      ctcaaacaa atgatcaaa attaatttt aaactgggt 
      aattttgaa gaaatgatg acgcgctac aagcaatta 
      ctgacttac attaaaagt gcagtcact agaaaccac 
      agcgagaaa tcaatcaac tcaatctta gactacatc 
      tcaacgtcg aaaaacatg gaactgctg caaaacttt 
      tacgaaacc actctcgag gcgcttaaa gacgcgaaa 
      aacgaccga ttatggttt aaaactaac acgaaatta 
      gggaaactt tactacgac cgcggcgac ttcaacaaa 
      cttgctaaa attttgaaa cagttacac cagtcttgc 
      cagaccgac gacggtgaa gacgacttg aaaaagggc 
      acacagctg ctggaaatc tacgctctg gagatccaa 
      atgtacaca gcgcagaag aacaacaaa aaactcaaa 
      acattgtac gagcagtcg ctccacatt aaatcagca 
      atacctcac ccacttatc atgggcgtg attcgagaa 
      tgcggcggc aagatgcat ctgcgcgag gacgagttc 
      gaaaaagcc cacactgac ttctttgaa gctttcaaa 
      aattacgac gagtcgggc agcccccgg agaaccacg 
      tgtctcaaa tatctagtg cttgcaaac atgctgatg 
      aaatcaggg attaacccg tttgactct caggaagct 
      aaaccgtac aaaaatgat cccgaaatt ctcgcaatg 
      acgaattta gtaaatgct taccaaacc aatgatatt 
      aacgagttt gagtcaatc ctgaagcag aaccggcag 
      aatattatg gacgatccg ttcattagg gaacatatt 
      gaagatttg ttgcgcaac atccggacc caagttttg 
      atcaagtta attaagccc tacactcgg attcagatc 
      ccgtttatt tcaaccgag ttaaacatt gatgtatcg 
      gaagtagaa aatctctta gtttcatgc atcttagat 
      aatacgatt gaaggaaga atagatcag gtcaatcaa 
      gtgttgttc ctagagcgg gctgcggtg aacatggcg 
      cggtacaac gctctggac cgatggact aaccagttg 
      aacaccctc cacttgtca ataatcaac aaaatggct 
      taa
    mRNA sequence
    • >TC004662 RA
      cgacgccac tgttttaaa atcgataac aattttatt 
      atcaatcaa aaatgcgcg tctcattgt actaaataa 
      ataaatctt cgcaataat ttagttgtt atagcccca 
      aataattgc cgactcggg tccgccact gtcacctgt 
      cagtggttt aaaaaaccg aagctgtca gtttgtcag 
      cgaaaaact ggacaaaaa ctagtttta aacataatt 
      aaaagtgaa aaacattga actgaaaat ccgggacca 
      tgtctgatg ctgaggacg attttatgt gcgaagatg 
      aggaggatt atggcttgg aatattcag aggatagta 
      attcggaac cggacgtgg atctggaaa atcagtact 
      ataatagca aatctttga aagaagagg agcccaaag 
      cggcgctag cttctttcc agaaagtcc tggacctgg 
      aaagcggcg agaaaggcg agtggggct tcaaagccc 
      tcaaacaaa tgatcaaaa ttaatttta aactgggta 
      attttgaag aaatgatga cgcgctaca agcaattac 
      tgacttaca ttaaaagtg cagtcacta gaaaccaca 
      gcgagaaat caatcaact caatcttag actacatct 
      caacgtcga aaaacatgg aactgctgc aaaactttt 
      acgaaacca ctctcgagg cgcttaaag acgcgaaaa 
      acgaccgat tatggttta aaactaaca cgaaattag 
      ggaaacttt actacgacc gcggcgact tcaacaaac 
      ttgctaaaa ttttgaaac agttacacc agtcttgcc 
      agaccgacg acggtgaag acgacttga aaaagggca 
      cacagctgc tggaaatct acgctctgg agatccaaa 
      tgtacacag cgcagaaga acaacaaaa aactcaaaa 
      cattgtacg agcagtcgc tccacatta aatcagcaa 
      tacctcacc cacttatca tgggcgtga ttcgagaat 
      gcggcggca agatgcatc tgcgcgagg acgagttcg 
      aaaaagccc acactgact tctttgaag ctttcaaaa 
      attacgacg agtcgggca gcccccgga gaaccacgt 
      gtctcaaat atctagtgc ttgcaaaca tgctgatga 
      aatcaggga ttaacccgt ttgactctc aggaagcta 
      aaccgtaca aaaatgatc ccgaaattc tcgcaatga 
      cgaatttag taaatgctt accaaacca atgatatta 
      acgagtttg agtcaatcc tgaagcaga accggcaga 
      atattatgg acgatccgt tcattaggg aacatattg 
      aagatttgt tgcgcaaca tccggaccc aagttttga 
      tcaagttaa ttaagccct acactcgga ttcagatcc 
      cgtttattt caaccgagt taaacattg atgtatcgg 
      aagtagaaa atctcttag tttcatgca tcttagata 
      atacgattg aaggaagaa tagatcagg tcaatcaag 
      tgttgttcc tagagcggg ctgcggtga acatggcgc 
      ggtacaacg ctctggacc gatggacta accagttga 
      acaccctcc acttgtcaa taatcaaca aaatggctt 
      aacattttg attattttt tcctactaa cagtgatta 
      agtccgcga aaatgtgat acgtttaca tgttaacta 
      gtagtatca ctaaacata tttatttta acattagtt 
      aggaaattc gttactttc tgttcagat gtattgctc 
      taacccgta ataaagttt catttcaaa c
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY