Status
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Gene information
General information
TC011563 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.

NW_015450689.1: 93245..94943
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
    		TC011563
    Gene ontology

    GO terms for Tribolium

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    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
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    The Tribolium gene the GO term is assigned to.
    GO ID *
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    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
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    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 *
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    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
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    Email
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_09010

    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: 0.0% (includes death as pupa, adult)

    Adult morphology
    abdominal odoriferous glands content opaque - Number of animals showing the phenotype: 3 (13 dpi)
    Days post injection


    Fertility
    vitellogenic egg chamber late not present - Number of animals showing the phenotype: 3

    mature egg not present - Number of animals showing the phenotype: 3
    vitellogenic egg chamber early without detectable defects - Number of animals showing the phenotype: 3

    tropharium anterior potentiallystructure irregular - Number of animals showing the phenotype: 2

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    3
    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
    • >TC011563 RA
      MTTVPNLKP PAQVAGLTT LDKNLFKKN ITVPCLILK 
NVKISSVLP FVKNYLLKI ENFKPVCNV TTGESHVYF 
NPEIIGAFS DLPPETQKL LNDLCVQLE LKPLTLNYE 
NFSIEGVFR AVLPPNVEG MSSFTKVGH IVHVNLREH 
LVPFKDIIG QVLFDKVPN CRTVVNKVG SIDNTYRNF 
QMEVLRGEN DTQTHVREN KCVFEFDFA KVYWNSRLC 
TEHERIVNM IESGDVVFD VFAGVGPFS VPLARKKCQ 
VFANDLNPE SFKWLNHNF KINKVGENY FKSYNKDGR 
EFILGEVKE LLPKFSAKN VFILMNLPA LAVDFLTTF 
VDLFSNDEL PEFGKHPVV VVYCFAKGE DFINIAKKS 
LCEKIGRNV EEKITDVFR VRTTAKFWS KITYGNEKI 
PALALNPKN SVMGKNKKK LNSVFKVAG AKSLKLKAK 
AKAVKSELK QINNKNKAK ITEIDKELV NLQEKVRNS 
TGDQKKETK NKTKLPSRQ NVTKEVGEK SQDTLKQLN 
AMQL
    CDS sequence
    • >TC011563 RA
      atgacaact gtccctaac ctcaaacca ccagctcaa 
gtagctggg ttaacaact ttggacaag aatttgttc 
aagaaaaac ataaccgtc ccgtgtctc atccttaag 
aacgtgaaa atctcatca gtcttgcca ttcgtgaaa 
aattacttg ttaaaaatt gagaatttt aagccggtt 
tgtaacgta accacgggg gaatcccac gtttacttc 
aacccggaa ataataggg gcttttagt gacttgccg 
ccagaaacg caaaaattg ctaaacgac ctgtgcgtg 
caactcgaa ttaaagccg ttgacttta aactacgag 
aatttttcg attgagggc gtttttcgc gccgtgctt 
cccccgaat gtcgagggg atgtcgagt tttactaaa 
gtggggcac attgtgcac gttaacctg cgcgaacac 
ctcgttccg tttaaagac ataattggg caagtgttg 
tttgataaa gtgcccaat tgtcggact gtggtcaat 
aaagtgggg agtattgat aacacgtat cggaatttc 
cagatggag gttttaagg ggcgaaaac gacacgcaa 
acgcacgtt agggaaaat aaatgtgtg tttgagttt 
gattttgcg aaagtgtac tggaattct agactctgc 
actgaacac gaaagaatt gtcaatatg atagagagt 
ggtgatgtt gtgtttgat gttttcgcg ggggttggg 
ccgttttcc gtgcctttg gctaggaaa aagtgccag 
gtttttgcc aatgatctc aatcccgag tcctttaaa 
tggctaaat cacaacttt aaaataaac aaagttggg 
gaaaattac tttaagagt tataataag gacgggcgg 
gagtttatc ttgggcgag gttaaggag ttgttgccg 
aaattttcg gccaaaaat gtttttatt ctgatgaat 
cttccggca ctggccgtt gatttttta acaactttt 
gttgattta ttctcaaat gatgagtta ccagaattt 
gggaaacac ccagttgtc gtagtttat tgctttgcc 
aaaggcgag gatttcata aacattgcc aaaaaatca 
ctttgtgaa aaaatcggt cggaatgtt gaagaaaaa 
attaccgat gtgtttcgt gtgcgcacc accgcgaaa 
ttttggtca aaaattacg tacggaaac gaaaaaatt 
cctgcgttg gcgttgaat ccaaaaaac tctgtgatg 
gggaaaaac aagaagaag ctcaatagt gtgttcaag 
gtcgccggg gccaaaagc ttgaagctc aaggccaag 
gcgaaagct gtcaaaagt gagctcaaa cagattaat 
aataaaaat aaggccaag ataacggaa attgataag 
gaactcgtc aacttgcag gaaaaagtc cgaaattcg 
accggtgac cagaagaaa gaaactaaa aataaaacc 
aaattaccg tcacgtcag aatgtgacg aaggaggtt 
ggtgaaaag tcgcaagac actttgaag caattgaat 
gccatgcag ttgtag
    mRNA sequence
    • >TC011563 RA
      caaaagcat gacaactgt ccctaacct caaaccacc 
agctcaagt agctgggtt aacaacttt ggacaagaa 
tttgttcaa gaaaaacat aaccgtccc gtgtctcat 
ccttaagaa cgtgaaaat ctcatcagt cttgccatt 
cgtgaaaaa ttacttgtt aaaaattga gaattttaa 
gccggtttg taacgtaac cacggggga atcccacgt 
ttacttcaa cccggaaat aataggggc ttttagtga 
cttgccgcc agaaacgca aaaattgct aaacgacct 
gtgcgtgca actcgaatt aaagccgtt gactttaaa 
ctacgagaa tttttcgat tgagggcgt ttttcgcgc 
cgtgcttcc cccgaatgt cgaggggat gtcgagttt 
tactaaagt ggggcacat tgtgcacgt taacctgcg 
cgaacacct cgttccgtt taaagacat aattgggca 
agtgttgtt tgataaagt gcccaattg tcggactgt 
ggtcaataa agtggggag tattgataa cacgtatcg 
gaatttcca gatggaggt tttaagggg cgaaaacga 
cacgcaaac gcacgttag ggaaaataa atgtgtgtt 
tgagtttga ttttgcgaa agtgtactg gaattctag 
actctgcac tgaacacga aagaattgt caatatgat 
agagagtgg tgatgttgt gtttgatgt tttcgcggg 
ggttgggcc gttttccgt gcctttggc taggaaaaa 
gtgccaggt ttttgccaa tgatctcaa tcccgagtc 
ctttaaatg gctaaatca caactttaa aataaacaa 
agttgggga aaattactt taagagtta taataagga 
cgggcggga gtttatctt gggcgaggt taaggagtt 
gttgccgaa attttcggc caaaaatgt ttttattct 
gatgaatct tccggcact ggccgttga ttttttaac 
aacttttgt tgatttatt ctcaaatga tgagttacc 
agaatttgg gaaacaccc agttgtcgt agtttattg 
ctttgccaa aggcgagga tttcataaa cattgccaa 
aaaatcact ttgtgaaaa aatcggtcg gaatgttga 
agaaaaaat taccgatgt gtttcgtgt gcgcaccac 
cgcgaaatt ttggtcaaa aattacgta cggaaacga 
aaaaattcc tgcgttggc gttgaatcc aaaaaactc 
tgtgatggg gaaaaacaa gaagaagct caatagtgt 
gttcaaggt cgccggggc caaaagctt gaagctcaa 
ggccaaggc gaaagctgt caaaagtga gctcaaaca 
gattaataa taaaaataa ggccaagat aacggaaat 
tgataagga actcgtcaa cttgcagga aaaagtccg 
aaattcgac cggtgacca gaagaaaga aactaaaaa 
taaaaccaa attaccgtc acgtcagaa tgtgacgaa 
ggaggttgg tgaaaagtc gcaagacac tttgaagca 
attgaatgc catgcagtt gtagatcat aaaataaat 
cgtttatta cgtt

    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