Status
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Gene information
General information
TC011981 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: 9363575..9369852
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
    		TC011981
    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
    {{ goGene }}
    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
    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.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_09471

    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)

    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

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

    head shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    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
    • >TC011981 RA
      MPTNNQVQD CGTLIVQVA QVTADVLIL LFQVLYAFI 
LSIVTLVVR KQPKSVRGE IVLITGAGH GIGKELAFL 
YASQGATVV IWDINEKNG TQTVKEIEQ LGHPKAHFF 
LCDVSNREN VLTVAKDVQ QKVGDVTIL INNAGIMPT 
HPLLEHSKD EIQRIMDIN VMAHFWTLE AFLPVMKKH 
NYGHIVSLS STAGIFGIP NLVPYCCSK YAVRGLMEA 
LYQECRADK KNEIKFTSI YPYMVDTGL CKKPIIKFQ 
NLMPLVNPK EAAAEIMDA QRRDLNEIT IPRYIFYAH 
NLCRMLPLK AQLFIFDFV GVGLESDLS
    CDS sequence
    • >TC011981 RA
      atgccgaca aacaatcaa gtgcaagat tgtggtacg 
ctcattgtg caagtagct caagtcact gcagacgtc 
ctgatatta ctgttccaa gttttgtac gcgtttatt 
ttaagtata gtgacttta gtagtgcgg aagcagcca 
aagtcggtt cggggcgaa atcgttttg ataacaggt 
gctgggcat ggcattggc aaagaattg gcctttttg 
tacgcctcg caaggtgcc actgttgtc atttgggac 
attaacgag aaaaatggt acccaaacc gtcaaagaa 
atcgaacag cttggtcac cccaaagct catttcttc 
ctgtgtgac gtttccaac cgcgaaaac gtcctaact 
gtggccaaa gacgtccaa caaaaggtg ggcgatgtc 
acgattctc atcaacaat gctgggatc atgccaaca 
caccctttg ctagagcat tctaaagac gaaatccag 
aggatcatg gacatcaac gtcatggcg cacttttgg 
acgctcgag gctttcctc cctgtgatg aaaaaacac 
aattacgga cacattgtc tccctttcg tcaacagca 
ggaatattc gggataccg aacttggtg ccttattgt 
tgctcgaaa tacgctgtt cgaggcttg atggaagcc 
ctctaccag gagtgcaga gcagacaaa aagaacgaa 
atcaagttc acttcgatt tacccctac atggttgat 
acagggttg tgcaaaaaa cccatcatc aagttccaa 
aacttgatg cctttggtg aatcccaaa gaagcagcg 
gctgaaatt atggacgca caaaggagg gatttgaac 
gaaattaca attccgaga tacattttc tacgcccat 
aacttgtgc cggatgctt cccctcaag gctcagttg 
ttcattttc gactttgtt ggagttgga ttggagtca 
gacttgtcg taa
    mRNA sequence
    • >TC011981 RA
      ccatgaaat ttaccttat ttttctatt tttgtacaa 
tttttttca ttcacttga atatcacac ctacacctg 
cctctcaaa cccaagatg atatttcta aattaccat 
ttctcaaaa gaatagaaa aattcttag attcgctat 
tatcccaat ttcctttgg aaagctcaa aggccaaga 
gtagcaatt ttttttcac aacctttgg cactacttt 
acagccaga aaaaggaac ctccccaag gcttatcat 
cttattttt tttcacaat ctgatccat ctaaacaaa 
tgcaaggcc gctcattgg gaagtaccg cttttacgt 
ggcttgttc ccggggggc gcggtacgt aaaataatc 
agtttaaac attcccatt aataaattc ctgaatatc 
aacagcaat ttacgattg ctacacaaa agcgataca 
aatcaagga catgataac aggtaaatt cactgaaat 
ttgggataa cttatcgca gattcccgg taaattgtt 
aggagctca cgagaaaag gtcattaag cagtgatct 
gatcaagat cttacctca aatttttta atgaactgg 
acaaagtca gggattgaa ggactggct tattaagtc 
ttgaatgaa gtacttaaa tatttattg ttgataaat 
aaatttgtt gcattatgt tctattgtt ccttaacca 
atttgttcc tccgaattt ttcatttga aatctcaac 
tataagtgc cccaataat cgataaatc aaacatttg 
ataacattg ttaagcatt ttacggctc ccattttga 
cttaccgtt acaaaatag ataaatcca tctaatctc 
tatttatgc actgcttcg tcaggtccc aaaaattgt 
aattcattg ttttcacac acgcagtgc ttttagtcc 
aataataaa atatttgac cgataaatc aagaactta 
tcttaaggt gagacattt tcgattcgt caaaggtcg 
attaaaaaa tattaaacc gacccaatc gaggctgga 
gataacact tgaatcatt atctaacaa agttaaagc 
attcaaaac aaatctacg tcttagttc atgaagctt 
tgctggaag aagtgccaa taagatgcc gacaaacaa 
tcaagtgca agattgtgg tacgctcat tgtgcaagt 
agctcaagt cactgcaga cgtcctgat attactgtt 
ccaagtttt gtacgcgtt tattttaag tatagtgac 
tttagtagt gcggaagca gccaaagtc ggttcgggg 
cgaaatcgt tttgataac aggtgctgg gcatggcat 
tggcaaaga attggcctt tttgtacgc ctcgcaagg 
tgccactgt tgtcatttg ggacattaa cgagaaaaa 
tggtaccca aaccgtcaa agaaatcga acagcttgg 
tcaccccaa agctcattt cttcctgtg tgacgtttc 
caaccgcga aaacgtcct aactgtggc caaagacgt 
ccaacaaaa ggtgggcga tgtcacgat tctcatcaa 
caatgctgg gatcatgcc aacacaccc tttgctaga 
gcattctaa agacgaaat ccagaggat catggacat 
caacgtcat ggcgcactt ttggacgct cgaggcttt 
cctccctgt gatgaaaaa acacaatta cggacacat 
tgtctccct ttcgtcaac agcaggaat attcgggat 
accgaactt ggtgcctta ttgttgctc gaaatacgc 
tgttcgagg cttgatgga agccctcta ccaggagtg 
cagagcaga caaaaagaa cgaaatcaa gttcacttc 
gatttaccc ctacatggt tgatacagg gttgtgcaa 
aaaacccat catcaagtt ccaaaactt gatgccttt 
ggtgaatcc caaagaagc agcggctga aattatgga 
cgcacaaag gagggattt gaacgaaat tacaattcc 
gagatacat tttctacgc ccataactt gtgccggat 
gcttcccct caaggctca gttgttcat tttcgactt 
tgttggagt tggattgga gtcagactt gtcgtaaac 
ttgttatgt ttttttatt gttttgtta gtatagaag 
tgtagataa tgaccagtg ataataaaa ttattatta 
atag

    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