Status
Please wait ...
Gene information
General information
TC011476 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_007425.3: 6831751..6833660
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
    		TC011476
    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_05042

    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: 30.0% (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 lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    Adult morphology
    abdominal odoriferous glands content darker - Number of animals showing the phenotype: 5 (13 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with muscle fluorescence/pattern, but not hatched (pot. late embryonic lethality) - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
     embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): less than 30%
    head swollen - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    head not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    head shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    legs size shortened - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    thorax swollen - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen swollen - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    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
    • >TC011476 RA
      MVLESTMIC VDNSDYMRN GDFLPTRLQ AQQDAVNLV 
CHSKTRSNP ENNVGLLTL ANVEVLATL TSDVGRILS 
KLHQVQPNG DINLHTGIR IAHLALKHR QGKNHKMRI 
VAFVGSPVA SEEKELVKL AKKLKKEKV NVDIVSFGE 
DFTNNEVLT TFINTLNGK DGSSSHLVT VPPGPHLSD 
ALISSPIIQ GEDGTGGAG LGASGFEFG VDPNEDPEL 
ALALRVSME EQRQRQEDE ARRAKEASS TETGAKTSP 
IKEEPSEEA MLERALAMS MEEDGESAP AGVPTVDFA 
NMTEDEQIA FAMQMSMQD AQESSSGKK EEPMEVEGD 
EDYSEVMND PAFLQSVLE NLPGVDPQS EAVRQAVGN 
LKDKKKEDK EDKQKK
    CDS sequence
    • >TC011476 RA
      atggtccta gagagtacg atgatttgt gtggacaat 
agtgactac atgcggaac ggggacttc ctcccgact 
cgtctgcag gcccaacag gacgctgtg aatttagtt 
tgccactcg aagacgagg tcaaatcct gaaaataac 
gtcggattg ttaacccta gcaaatgtt gaagtatta 
gcgactctt acaagcgac gtggggcgc attttgtcc 
aagctgcac caggtccag cccaatggg gacatcaac 
ctgcatacg gggatccgc attgctcac ttggcactg 
aagcaccgc cagggcaag aaccacaaa atgcgaatc 
gtggccttc gttggcagc cctgtggcg tccgaagaa 
aaggagtta gtgaaatta gcgaaaaaa ttaaaaaag 
gagaaagta aacgtcgat atagtcagt tttggtgaa 
gacttcacc aataatgaa gtcctgacg acttttatc 
aacactttg aacggaaaa gacggcagc agcagccac 
ttggtgacg gtgccccct ggcccccat ctgtcggac 
gctctcatc tcctcgccc ataatacaa ggggaggat 
ggtacgggc ggggccggt ctgggggct tccggtttc 
gagtttggt gtggacccc aatgaggac ccagaactg 
gcgctggcg ctgcgtgtg tccatggag gagcagagg 
caaagacag gaggatgag gcgagacgg gctaaggag 
gcttcgtct actgaaacg ggggctaaa acttcgccc 
attaaggag gagcccagt gaggaggca atgctggag 
agggcgctg gcgatgtcc atggaggag gatggggag 
agtgcccct gcgggggtt cccactgtc gattttgcg 
aatatgacc gaggatgag caaattgcg ttcgcgatg 
cagatgtcg atgcaggat gcacaagag tcgagttct 
gggaagaaa gaggagccg atggaggtt gaaggagat 
gaagattat tcggaagta atgaatgat ccggcgttt 
ctgcaaagt gttttggag aatttgcca ggagttgat 
ccgcagtcg gaagctgtg agacaggcg gtggggaac 
ttgaaggat aagaagaaa gaggataag gaggataaa 
cagaagaaa taa
    mRNA sequence
    • >TC011476 RA
      tgcccaagc agacgtcag taccagaat tttcgtagt 
tttttggcc aaaagtgtt caatttagc ccaaaaacc 
tagcaaaat ggtcctaga gagtacgat gatttgtgt 
ggacaatag tgactacat gcggaacgg ggacttcct 
cccgactcg tctgcaggc ccaacagga cgctgtgaa 
tttagtttg ccactcgaa gacgaggtc aaatcctga 
aaataacgt cggattgtt aaccctagc aaatgttga 
agtattagc gactcttac aagcgacgt ggggcgcat 
tttgtccaa gctgcacca ggtccagcc caatgggga 
catcaacct gcatacggg gatccgcat tgctcactt 
ggcactgaa gcaccgcca gggcaagaa ccacaaaat 
gcgaatcgt ggccttcgt tggcagccc tgtggcgtc 
cgaagaaaa ggagttagt gaaattagc gaaaaaatt 
aaaaaagga gaaagtaaa cgtcgatat agtcagttt 
tggtgaaga cttcaccaa taatgaagt cctgacgac 
ttttatcaa cactttgaa cggaaaaga cggcagcag 
cagccactt ggtgacggt gccccctgg cccccatct 
gtcggacgc tctcatctc ctcgcccat aatacaagg 
ggaggatgg tacgggcgg ggccggtct gggggcttc 
cggtttcga gtttggtgt ggaccccaa tgaggaccc 
agaactggc gctggcgct gcgtgtgtc catggagga 
gcagaggca aagacagga ggatgaggc gagacgggc 
taaggaggc ttcgtctac tgaaacggg ggctaaaac 
ttcgcccat taaggagga gcccagtga ggaggcaat 
gctggagag ggcgctggc gatgtccat ggaggagga 
tggggagag tgcccctgc gggggttcc cactgtcga 
ttttgcgaa tatgaccga ggatgagca aattgcgtt 
cgcgatgca gatgtcgat gcaggatgc acaagagtc 
gagttctgg gaagaaaga ggagccgat ggaggttga 
aggagatga agattattc ggaagtaat gaatgatcc 
ggcgtttct gcaaagtgt tttggagaa tttgccagg 
agttgatcc gcagtcgga agctgtgag acaggcggt 
ggggaactt gaaggataa gaagaaaga ggataagga 
ggataaaca gaagaaata agttaggga taattgtta 
ctttagtta tttttttac ataataatt atacattta 
tatgcggaa ctgtattga tttcatttg tagtgtgaa 
gtatcattt caaataaat ggattaact aatc

    If you use iBeetle-Base, please cite: Dönitz J et al.: Expanded and updated data and a query pipeline for iBeetle-Base,
    Nucleic Acids Res. 2018 Jan 4;46(D1):D831-D835. doi: 10.1093/nar/gkx984.

    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY