Status
Please wait ...
Gene information
General information
TC006619 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_007423.3: 12047831..12049844
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
    TC006619
    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_04181

    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


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006619 RA
      MTLLFNLFQ DKLLSKLEE SEPEMASCQ EEECVICIN 
      AKATMQTAP CGHQVVCRK CFVKTIQIA VSQRLLPLR 
      CVICRAKIL RLKTGPILP SSASGYSVN SRSSSVPQS 
      DSLYSVSSG GSSVSSTSC SSDGSRKSS ACCGGRCMG 
      AYPRQPATG AIRRSQQHA MKIRLQEYC HPEKGNINR 
      LPPIRELPG QSPSHNTPP ASTRIRCAQ KIVTQLESV 
      PLLGKSRNK YEKLPQEDV DEQVKKERK WWSDRSINE 
      EKIDNKKNE ITEKHMEMK EKQKLEDKK KTIKDARL
    CDS sequence
    • >TC006619 RA
      atgactttg ttatttaac ttgtttcag gataagcta 
      ctgagcaag ctggaggag agcgaaccc gaaatggcg 
      agttgccag gaagaagag tgtgtgatt tgcatcaac 
      gccaaagcc accatgcaa acggcccct tgcgggcac 
      caggtcgtc tgcaggaag tgcttcgtg aagacgatt 
      caaatcgcc gtctcgcag cgactcctt ccgttgcgt 
      tgcgtcatc tgccgagcg aaaatcctg agattaaaa 
      acgggcccc atcctgccc tcttcggcc agtggttac 
      tcggtcaac tcccgttcc tcgtcggtg ccccagtcc 
      gacagcttg tacagcgtc agcagcggc ggctcgtcc 
      gtttcttcc acttcttgt tcttccgac ggtagcagg 
      aagtcttcg gcgtgctgc ggcggccgc tgcatgggg 
      gcctacccc cggcagccc gccaccggg gccatcagg 
      cgctcgcag cagcacgcc atgaagata agactgcag 
      gagtactgc catccggaa aaggggaac attaacaga 
      cttcccccc ataagggag ttgcccggg caaagtccc 
      agccacaac acgcccccg gcttccact aggataaga 
      tgtgcccag aagatcgtg acccagctg gagtcggtg 
      ccgctgttg ggcaagagc cgaaacaaa tacgagaaa 
      ctcccgcaa gaggacgtg gacgagcag gtgaagaag 
      gagaggaag tggtggtct gaccgaagc attaacgag 
      gagaaaatc gacaacaaa aagaacgaa atcaccgag 
      aagcacatg gagatgaag gaaaaacag aaactcgaa 
      gataaaaag aaaacaata aaagacgca aggctataa
    mRNA sequence
    • >TC006619 RA
      tagtttgag tacaaaatg tcacacatt ggataatta 
      taataattt tgttaattg ttgaatgac tttgttatt 
      taacttgtt tcaggataa gctactgag caagctgga 
      ggagagcga acccgaaat ggcgagttg ccaggaaga 
      agagtgtgt gatttgcat caacgccaa agccaccat 
      gcaaacggc cccttgcgg gcaccaggt cgtctgcag 
      gaagtgctt cgtgaagac gattcaaat cgccgtctc 
      gcagcgact ccttccgtt gcgttgcgt catctgccg 
      agcgaaaat cctgagatt aaaaacggg ccccatcct 
      gccctcttc ggccagtgg ttactcggt caactcccg 
      ttcctcgtc ggtgcccca gtccgacag cttgtacag 
      cgtcagcag cggcggctc gtccgtttc ttccacttc 
      ttgttcttc cgacggtag caggaagtc ttcggcgtg 
      ctgcggcgg ccgctgcat gggggccta cccccggca 
      gcccgccac cggggccat caggcgctc gcagcagca 
      cgccatgaa gataagact gcaggagta ctgccatcc 
      ggaaaaggg gaacattaa cagacttcc ccccataag 
      ggagttgcc cgggcaaag tcccagcca caacacgcc 
      cccggcttc cactaggat aagatgtgc ccagaagat 
      cgtgaccca gctggagtc ggtgccgct gttgggcaa 
      gagccgaaa caaatacga gaaactccc gcaagagga 
      cgtggacga gcaggtgaa gaaggagag gaagtggtg 
      gtctgaccg aagcattaa cgaggagaa aatcgacaa 
      caaaaagaa cgaaatcac cgagaagca catggagat 
      gaaggaaaa acagaaact cgaagataa aaagaaaac 
      aataaaaga cgcaaggct ataaattga ttttccaag 
      agggctcaa ttagtcaat tagtttagt caattgcgc 
      tatgtaatc cacgggaaa tcctcggaa agtcggtag 
      tactagacg atggttggt gtcacggcc ctcttagcc 
      ttctcccag tccctcttc ttgttaatc ctagatttc 
      gaataccgc tatttaaaa ccgcttgtg aaggccaat 
      tttaataac gacttgtat atcagcccg atccaaata 
      ctatacgat cattctgta tatgaacaa agtggtctc 
      tactagagt aggcaaata catatctaa taatgaatt 
      cgacgaaat caaaatatt tttaacaat aatggtcta 
      acggtacaa atatccacg ctcgtttgt ttgtataca 
      gactgagga gtaatttca aatgttggc aataatatt 
      gaaatacat attaggaat attgtactt agcgctggt 
      tacgaccct gtatcatat agaacttta attttgtaa 
      gagtagacg tgttgtatt gttgtggtt agtacattt 
      caaataaag ttgaaaatt aatt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY