Status
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Gene information
General information
TC011651 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: 16011257..16015931
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
    		TC011651
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_06530

    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): 30% - 50%
    head constricted - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    Comment: In strong cases, the head is completely seperated from the thorax.
    head not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    Comment: Head and thorax are more often affected than the abdomen.
    thorax not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    Comment: Head and thorax are more often affected than the abdomen.
    abdomen not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    Comment: Head and thorax are more often affected than the abdomen.
    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011651 RA
      MRDSGDRIR RERTSPTSS RTVLRRVLV LSEGRQFRE 
AAAVLQKLN CNSVAAVAA DLPLDFLAE GLPHSAQLL 
ETLFNKLIT SGQRPNVNA EQVLWQLVK LFASHEDPT 
LKTKVARLT QILVDYQPE FYRILATKK KALEHAIQG 
LGCHGLTPD ASGLTHLHV AIKAELHRH IDAYKNALH 
RLDELGLAA ANSKKPVDA SHQRLLALH HSEVQQRLI 
DNKTLLTIL DKPDLKQLR PLVDTLATR VQNDKEALF 
CVSQLKRLH PSCEEKPVA ALLMAFARG CGALLELMQ 
TPESPCSSD GYHSESEQD NDRGKDLIG RYASLYYQH 
RPRALEALD SLPELAHAT QLKSKILFS VVVLAFRTC 
KNLRDTKLK ETFRNLHLD CRTAAGQHL RDDVVRCLA 
ACAETYPLG EAEHQVRAL VCDTLKEYK CLETCTALR 
RYVGDVTRV AWLLVNQVP GYELDTDFQ TPVRLKNDR 
HQRHHSADR TSDVVKAYL WPALVVQNV CVYKAVVVT 
GGT
    CDS sequence
    • >TC011651 RA
      atgcgggac tccggtgat cggatccgt cgcgagaga 
acttctccg acgagttca cgaacagtg ttgaggcga 
gtgctggtg ttgtccgag gggcggcag ttccgagag 
gcggcggcc gttctgcaa aagctcaat tgtaatagt 
gtggcggcg gtggcagct gatctgccc cttgatttc 
ttggcagag gggttgcca cactcggcg caactgctg 
gagacgctc ttcaacaag ttaataaca tcaggccaa 
aggccaaat gtgaacgct gaacaggtg ctctggcaa 
ttggttaaa ctgttcgct tcacacgaa gacccaacg 
ctcaagact aaagttgca agattaaca caaatcctc 
gtcgactat cagccggaa ttttatcga attctagca 
acaaagaaa aaagctctg gaacatgct atacaaggt 
ttggggtgc cacgggctg acccccgac gccagcggc 
ctgacccac ctccatgtg gccatcaag gccgaattg 
caccggcac atagacgcc tacaaaaat gcgctgcac 
cggcttgat gagctcggc cttgctgca gccaattcc 
aaaaaacct gtggatgct tcccaccaa agacttctt 
gccttgcac cactccgaa gtgcagcaa agactcatc 
gacaataaa acgctcctc accatcctc gacaagccc 
gacttgaag cagctgcga ccgttggtg gatacgttg 
gccaccaga gtgcaaaac gacaaagag gcgcttttt 
tgcgtttcg caactaaaa aggctgcat ccgagttgt 
gaggagaaa cctgtagct gctctgctt atggctttt 
gcacgagga tgtggcgcc ctcttggag cttatgcag 
actccggaa agtccttgc agcagcgat gggtatcat 
tcagagtcg gagcaggat aacgatcga gggaaagac 
ctcatcggc cgctacgcc tccctgtac taccagcac 
cgtcctcgt gcccttgaa gccctcgac tcgctcccc 
gagttagct cacgccact caactcaaa tcgaaaatc 
cttttctcg gtggttgtc ctcgctttc agaacctgc 
aagaatcta cgcgatacg aaactgaaa gagacattt 
cgaaatttg catttggat tgtcggacg gccgccggt 
cagcacctc cgtgacgat gtcgtccgg tgtttggcc 
gcctgtgcc gagacgtat ccgctcggt gaagccgag 
caccaggtg cgggctctg gtgtgcgat actctcaaa 
gagtacaag tgtttggag acgtgtacg gcgttgaga 
cgatacgtg ggggacgtc accagagtg gcttggctt 
ttggtcaac caggtgccg ggatatgag ctcgatacg 
gacttccag acgcctgtg aggctcaag aatgacaga 
catcagagg catcattcg gctgatcgg acgagtgat 
gtggtcaaa gcctatctc tggccggct ttagttgtg 
caaaatgta tgcgtgtat aaagctgtt gtggtcact 
ggagggacc tga
    mRNA sequence
    • >TC011651 RA
      tgcagccgc ctttggcga actccgcca aagaatgaa 
agagaccag ctcagaaga gagaactac cctccggct 
cagctcggc caacttgcc gtgaaactc cttcaagtt 
gatttccac caggtggac tcactccaa atgttctct 
cgtccaatc tccccatgt tcccacctc ttcggacgc 
acctccggt tcttgaagt gtgtcagtg tgccgctgc 
tggatcttc agccggcag cagcatctt gttgcattc 
atgtcgaaa ctccggtgc gatgcggga ctccggtga 
tcggatccg tcgcgagag aacttctcc gacgagttc 
acgaacagt gttgaggcg agtgctggt gttgtccga 
ggggcggca gttccgaga ggcggcggc cgttctgca 
aaagctcaa ttgtaatag tgtggcggc ggtggcagc 
tgatctgcc ccttgattt cttggcaga ggggttgcc 
acactcggc gcaactgct ggagacgct cttcaacaa 
gttaataac atcaggcca aaggccaaa tgtgaacgc 
tgaacaggt gctctggca attggttaa actgttcgc 
ttcacacga agacccaac gctcaagac taaagttgc 
aagattaac acaaatcct cgtcgacta tcagccgga 
attttatcg aattctagc aacaaagaa aaaagctct 
ggaacatgc tatacaagg tttggggtg ccacgggct 
gacccccga cgccagcgg cctgaccca cctccatgt 
ggccatcaa ggccgaatt gcaccggca catagacgc 
ctacaaaaa tgcgctgca ccggcttga tgagctcgg 
ccttgctgc agccaattc caaaaaacc tgtggatgc 
ttcccacca aagacttct tgccttgca ccactccga 
agtgcagca aagactcat cgacaataa aacgctcct 
caccatcct cgacaagcc cgacttgaa gcagctgcg 
accgttggt ggatacgtt ggccaccag agtgcaaaa 
cgacaaaga ggcgctttt ttgcgtttc gcaactaaa 
aaggctgca tccgagttg tgaggagaa acctgtagc 
tgctctgct tatggcttt tgcacgagg atgtggcgc 
cctcttgga gcttatgca gactccgga aagtccttg 
cagcagcga tgggtatca ttcagagtc ggagcagga 
taacgatcg agggaaaga cctcatcgg ccgctacgc 
ctccctgta ctaccagca ccgtcctcg tgcccttga 
agccctcga ctcgctccc cgagttagc tcacgccac 
tcaactcaa atcgaaaat ccttttctc ggtggttgt 
cctcgcttt cagaacctg caagaatct acgcgatac 
gaaactgaa agagacatt tcgaaattt gcatttgga 
ttgtcggac ggccgccgg tcagcacct ccgtgacga 
tgtcgtccg gtgtttggc cgcctgtgc cgagacgta 
tccgctcgg tgaagccga gcaccaggt gcgggctct 
ggtgtgcga tactctcaa agagtacaa gtgtttgga 
gacgtgtac ggcgttgag acgatacgt gggggacgt 
caccagagt ggcttggct tttggtcaa ccaggtgcc 
gggatatga gctcgatac ggacttcca gacgcctgt 
gaggctcaa gaatgacag acatcagag gcatcattc 
ggctgatcg gacgagtga tgtggtcaa agcctatct 
ctggccggc tttagttgt gcaaaatgt atgcgtgta 
taaagctgt tgtggtcac tggagggac ctgatttta 
ttccactct aatttttta caaatcaaa ttttattta 
ctcaatgca tttactttg taatttgta aatattatc 
gtgttacgt tttatcaat aaagtaaat acaagctt

    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