Status
Please wait ...
Gene information
General information
TC000048 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_007418.3: 10752365..10755201
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
    TC000048
    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_09779

    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
    • >TC000048 RA
      MSQVLAEKR LLITYSLCT VLGAVASIT TGIAWGHWK 
      LTLDQCVNG KNCSCILYG QHTPSKFLG GSAAPCIWV 
      TFGPLFYVL FTIAMSCFH GYRVIFSSR SVKTRTVMS 
      KNDAGETVE TRLVQIDDT APLPRSFWV TLAVLTSIW 
      TVYALVHFA IFLDGFYHT CNQYRRTLE ILLGVHGTA 
      IPVIHGRLS CQSIFDFMD YMQPSSGYG YRDGFIYTG 
      ADLIIGILA ACFAWILFA MASFINIKR AKVQE
    CDS sequence
    • >TC000048 RA
      atgagtcaa gtcctagcc gaaaaaagg cttcttata 
      acgtactca ctgtgcaca gtattgggg gctgtggcc 
      agcatcacg acaggcatc gcatggggg cactggaag 
      ctgactcta gaccagtgc gtcaatgga aaaaattgc 
      agctgtatt ttatacggc caacacaca ccgtccaaa 
      tttctaggc ggtagcgcg gccccttgc atttgggtg 
      actttcggc ccccttttc tacgtcctc ttcaccatc 
      gcaatgtcg tgcttccac ggctatcga gtcattttc 
      agctcacgt tcggtcaag acacgcacc gtcatgagc 
      aaaaacgat gctggtgaa acggtggag acacgtctc 
      gtccaaatc gacgacaca gcccccctt ccacgttcg 
      ttttgggtc actttggcc gtccttacg tccatatgg 
      acggtctac gccctcgtc cactttgcc atatttctg 
      gacgggttc taccacacg tgcaaccaa tatcgaagg 
      acgctcgag atcttatta ggagtccat ggaactgca 
      attccagtt attcatgga cggttgtct tgccaaagc 
      attttcgat tttatggac tacatgcaa ccgagtagc 
      ggatacgga tacagggac ggttttatt tacacaggg 
      gcggaccta attatcggg attttagcc gcgtgtttc 
      gcgtggatt ctttttgcc atggcctcg tttatcaac 
      attaagagg gcaaaagta caagagtaa
    mRNA sequence
    • >TC000048 RA
      gttagttgc ctgccacac aaaaaggag tgtccaact 
      taattacaa attcgttga acttttacg tctctatga 
      atggaccgg caattaaaa ctactacaa ctactcatc 
      tggcatcaa atatgttac aaaaatgtg tctttagct 
      aaagcaatc gcccaaaat aaataattt gttatccgg 
      ttatcaccg taatgtttg tacaaccct atctaccta 
      tacaggtag gctgaatgg ttaattagc ttagataaa 
      acaggtggg gtgtttaca gtgcgttgt tttgtttgt 
      aaacacaaa ttttatagt attttagtg gaaaacgca 
      gacatgagt caagtccta gccgaaaaa aggcttctt 
      ataacgtac tcactgtgc acagtattg ggggctgtg 
      gccagcatc acgacaggc atcgcatgg gggcactgg 
      aagctgact ctagaccag tgcgtcaat ggaaaaaat 
      tgcagctgt attttatac ggccaacac acaccgtcc 
      aaatttcta ggcggtagc gcggcccct tgcatttgg 
      gtgactttc ggccccctt ttctacgtc ctcttcacc 
      atcgcaatg tcgtgcttc cacggctat cgagtcatt 
      ttcagctca cgttcggtc aagacacgc accgtcatg 
      agcaaaaac gatgctggt gaaacggtg gagacacgt 
      ctcgtccaa atcgacgac acagccccc cttccacgt 
      tcgttttgg gtcactttg gccgtcctt acgtccata 
      tggacggtc tacgccctc gtccacttt gccatattt 
      ctggacggg ttctaccac acgtgcaac caatatcga 
      aggacgctc gagatctta ttaggagtc catggaact 
      gcaattcca gttattcat ggacggttg tcttgccaa 
      agcattttc gattttatg gactacatg caaccgagt 
      agcggatac ggatacagg gacggtttt atttacaca 
      ggggcggac ctaattatc gggatttta gccgcgtgt 
      ttcgcgtgg attcttttt gccatggcc tcgtttatc 
      aacattaag agggcaaaa gtacaagag taaggtaaa 
      caaagtaca aagtaacta cggattact aaagttagg 
      atacgaaac gacgtacaa ataaaagtt aaacactat 
      tcaacatta aacaaattc tgtcaattt tcgcccatc 
      agaatctga taaaaacaa agcagttaa tatgtatct 
      gcttttaac tttatttat ttaaacatg cactacaat 
      tttaaatgt cacctttat tttctaaga tacctaaaa 
      atcaccctt tatttattt aagaagttt ttgtttttt 
      tttttttca aaaaattaa gccattttt acacattat 
      tttctatag taggtatta tgttgtcat tgactgttt 
      tcaaagaca tttagtgta ttgtacact actcagact 
      ttttctacc agtttttat cgtaaaatt tctctataa 
      tatgaattg aaactacta aaaactttt taaaactca 
      ttaactaaa catctaaga acttacgaa gtaaaaaca 
      tatgaggaa aactattga ctatttatt taaaaaata 
      aatcaaaat taagccgtc cttaaaatt ttgccaccc 
      tgggcaaat agctcgttt agcccataa gtaaataag 
      ccactgtcc atttacctc aagttttca gagtaacga 
      atttaaaaa aaaatacaa cggttagcg aaaagcaaa 
      tgaaaaaat acagataga acattaaat attcaatag 
      taatataag acaaaagta atgcgaaaa ttagatcgt 
      gaactatat caaaaaaaa acttttagc aatttgcac 
      tctgtcttg tcttctagt cttcaaaac gctgggaat 
      gcggttaca gaaacaata aaaatgtta ggaaaaaag 
      ttgaaatga attaaattt tctaaaaaa aaataagcg 
      agaccgtat ccatcatat cttcgatcg tttaggcct 
      caaagtaaa atacattta ttggtgatt gaattgcgt 
      ataaattgg ccaaaccaa aaacgccag agactgcaa 
      tgaatcctg acaaaagtt atggaaact gtgaacagt 
      aatccacat atcagctag aggctaatt tggaggcaa 
      actgggatt aaccgggtt ctaaaatta tcatttcaa 
      attggtcca aacgttaaa cgaagctga ttatgaaag 
      tgagtcctc tgttacatt atagaagat aaaaccaaa 
      tcacaaaca aatttataa ttattagtg tttttgaat 
      caagtagta attgagtaa tgtattact ggttgcatt 
      taaaattcg tcaaaaatt atgtgaatc accctgttt 
      gaatttttt attaaatct aaaatttgg attcattct 
      ttaattttt tctttgttt tgtttgtga agttcattt 
      gaaacttca caaaaatat aattaagtt aaaagaaaa 
      atataatta tcatttggt tctgataat tgagtggta 
      aaatgaaac ggagtgcaa attttaatt attttttgt 
      cgccatttt gacgcttta atagagata ttaaagcac 
      gcaacgtca t
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY