Status
Please wait ...
Gene information
General information
TC012447 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_007424.3: 7498134..7616290
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
    TC012447
    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.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_07630

    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)

    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 30% - 50%

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

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 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
    • >TC012447 RA
      MEPFLEEEN RTRAQLMDS SDYVVTVNE TDLENEIPE 
      NQDPVTMMS ILVVGTFLT LLIFLSVAG NILVCVAIY 
      TDRGLRRIG NLFLASLAI ADLFVASLV MTFAGVNDI 
      LGYWIFGAQ FCDTWVAFD VMCSTASIL NLCAISLDR 
      YIHIKDPLR YGRWVTRRV ALGTIATIW LLAALISFV 
      PISLGLHRP PQPLVYNAG GQNYPTCAL DLTPTYAVV 
      SSCISFYVP CIVMIGIYC RLYCYAQKH VKNIRAITR 
      PIDLPENSN TKKSMKQKN KALHIHLHN HHSSPYHVS 
      DHKAAVTVG IIMGVFLIC WVPFFCINI VAAFCKTCI 
      PDITFKILT WLGYSNSAF NPIIYSIFN TEFREAFKR 
      ILTAHYPAW CKCGYQSVS LNTNDKFVT DYGTKTVIV 
      NARRNGSFG EFSSEHLST ESVHQTRVN STERDLFGE 
      GVSAI
    CDS sequence
    • >TC012447 RA
      atggaaccg tttctggaa gaggagaat agaactcgg 
      gcacaacta atggactct tcggattac gtggtaacc 
      gtcaatgag accgacctg gaaaacgaa attcctgaa 
      aaccaggat ccggtcacg atgatgtcg atactggta 
      gtgggaacg ttcctgact ctgctcatc ttcctctcc 
      gtggccggc aacatcctg gtgtgtgtg gccatctac 
      accgaccgc ggtctgcgg cgcatcggc aacctcttc 
      ttggcctcg ctggccatt gccgacctg ttcgtcgcc 
      tctttggtg atgaccttc gccggcgtg aacgacatc 
      ctcggctat tggatattc ggtgcccaa ttctgcgac 
      acgtgggta gccttcgac gtgatgtgt tcgacagcg 
      agcatatta aacctgtgc gctatatca ctagataga 
      tacattcac attaaagac cccctgaga tatggaagg 
      tgggtgaca agacgagtg gctttagga acaatagca 
      acaatatgg cttctggcg gcgcttata tcgttcgtt 
      cccatttcg ctgggcctg caccggcct ccgcagccc 
      ctcgtctac aacgccggg ggccaaaac tatccgacg 
      tgcgctctc gatctcact ccaacctac gccgtcgtc 
      tcgagctgc atctcgttc tacgttcct tgcattgtc 
      atgatcggt atttactgc cggctttac tgctacgct 
      caaaagcac gtgaagaac atcagagcc atcacgcgc 
      cccatcgac ctccccgag aacagcaac acgaagaaa 
      agcatgaag cagaagaac aaagcgctc cacatccac 
      ctgcacaac caccacagc tccccgtac cacgtgagc 
      gaccacaag gccgccgtc accgtgggc ataataatg 
      ggcgtgttc ctcatctgc tgggtgccg ttcttctgc 
      ataaacatc gtggcggcg ttctgcaag acgtgcatc 
      ccggacatc accttcaag atcctcacc tggctcggc 
      tactccaac tccgcgttc aatcccatc atctactcg 
      atcttcaac accgagttt cgggaggct ttcaaacga 
      atcctaacc gcccattac ccggcctgg tgcaaatgc 
      ggctaccag tccgtctcg ctgaacact aacgacaag 
      tttgtcacg gattacggc acgaaaacg gtgatcgtg 
      aacgcgaga aggaacggc tccttcggc gagttctcc 
      agcgagcac ctcagcacc gagtccgtg caccagacg 
      cgggtcaac tccaccgag cgcgacctc ttcggcgag 
      ggcgtcagc gccatttga
    mRNA sequence
    • >TC012447 RA
      aaccacaag ccaatacta actttgggg gatggtaca 
      cgcaccgag ctttttccg caccagggg taattaaaa 
      atgtgtgtc agagatgga accgtttct ggaagagga 
      gaatagaac tcgggcaca actaatgga ctcttcgga 
      ttacgtggt aaccgtcaa tgagaccga cctggaaaa 
      cgaaattcc tgaaaacca ggatccggt cacgatgat 
      gtcgatact ggtagtggg aacgttcct gactctgct 
      catcttcct ctccgtggc cggcaacat cctggtgtg 
      tgtggccat ctacaccga ccgcggtct gcggcgcat 
      cggcaacct cttcttggc ctcgctggc cattgccga 
      cctgttcgt cgcctcttt ggtgatgac cttcgccgg 
      cgtgaacga catcctcgg ctattggat attcggtgc 
      ccaattctg cgacacgtg ggtagcctt cgacgtgat 
      gtgttcgac agcgagcat attaaacct gtgcgctat 
      atcactaga tagatacat tcacattaa agaccccct 
      gagatatgg aaggtgggt gacaagacg agtggcttt 
      aggaacaat agcaacaat atggcttct ggcggcgct 
      tatatcgtt cgttcccat ttcgctggg cctgcaccg 
      gcctccgca gcccctcgt ctacaacgc cgggggcca 
      aaactatcc gacgtgcgc tctcgatct cactccaac 
      ctacgccgt cgtctcgag ctgcatctc gttctacgt 
      tccttgcat tgtcatgat cggtattta ctgccggct 
      ttactgcta cgctcaaaa gcacgtgaa gaacatcag 
      agccatcac gcgccccat cgacctccc cgagaacag 
      caacacgaa gaaaagcat gaagcagaa gaacaaagc 
      gctccacat ccacctgca caaccacca cagctcccc 
      gtaccacgt gagcgacca caaggccgc cgtcaccgt 
      gggcataat aatgggcgt gttcctcat ctgctgggt 
      gccgttctt ctgcataaa catcgtggc ggcgttctg 
      caagacgtg catcccgga catcacctt caagatcct 
      cacctggct cggctactc caactccgc gttcaatcc 
      catcatcta ctcgatctt caacaccga gtttcggga 
      ggctttcaa acgaatcct aaccgccca ttacccggc 
      ctggtgcaa atgcggcta ccagtccgt ctcgctgaa 
      cactaacga caagtttgt cacggatta cggcacgaa 
      aacggtgat cgtgaacgc gagaaggaa cggctcctt 
      cggcgagtt ctccagcga gcacctcag caccgagtc 
      cgtgcacca gacgcgggt caactccac cgagcgcga 
      cctcttcgg cgagggcgt cagcgccat ttgacagga 
      ctgcgacca tctgcagga cacgatggt ttaacacgg 
      cgcaggatg gtcttctca aaatggctg tggattact 
      aatttcata cgtaaattt actgtactg tctctcgcg 
      gtgtcgtct tcatggctt aaggcggac gatggctac 
      ttctagtct taaatgtga tcgagtcat atcagtttc 
      agtcgtcgt caagtagca atacttcaa tgaggttgt 
      gatatgttc tagtctcca aacagttgt ggcactatt 
      tgatcgagc tcggccaaa gaacaaata tttacatta 
      aatcaacgc tccggaaaa cttttattg atctagctc 
      ttttccact tttcattgc caataaaac aataagtga 
      ttc
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY