Status
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Gene information
General information
TC015089 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_007421.3: 3481226..3483494
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
    		TC015089
    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
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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_05750

    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)

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    larval musculature irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

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

    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen partiallyremaining - Penetrance (percentage of animals/eggs on slide): less than 30%
    thoracic segment partially sometimes remaining - Penetrance (percentage of animals/eggs on slide): less than 30%
    head partially sometimesremaining -
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 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: -1.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: -1.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC015089 RA
      MKPILWSYI GVLLINEGL CCIFLRLNE GVIKGRIAT 
VPKSTKQFY AFQEIPYAA PPIGKLRFQ PPVPVSGWD 
KVLDTTKNT KICYQIGIN STQENEDCL YLNVYTPKL 
PSSTSSTSL PVMVFFHGG AFAIGDSKY SSYGPQFLV 
NHEVVLVTL NYRLGVFGF LSTQDKVIP GNNGLKDQL 
LALQWVRKN IHLFGGNSS QVTIFGQSA GAASVGYHL 
VSKKSRGLY RAAIMESSS VLNSFGYQR NAKHFAQKI 
ASYINASVT EEATSEEIF RVMLRASST EIDAAADKI 
ASEESYNSA QLFQGYYFA PVIEPDHEN AFLTEKMFK 
ILDRGGGAK VPVIVGINS EESLSRNTD INFLKRLMK 
LYDDDLKAL VPNNMNIVD ENAKVEAGK LIRKLYSGE 
DLLQNVAAA GIRYMSDTS FTRAVIKFA SLQSKYSDV 
YFYQFSYDG QVGNISVTV EGAERVGHN EELSYLWRI 
RTEATNNDL SAFSQNDFT TQHRLLKLW TNFAKTLNP 
TPEKTELFQ NVIWPKVLP DNDFPYLDI DENLQVKNY 
PKNESFRGW ERIYEQYGN GNYDTY
    CDS sequence
    • >TC015089 RA
      atgaaacca atattatgg tcttacatc ggagtactt 
ttaatcaat gaaggcctg tgttgcata tttttgaga 
ttaaacgaa ggagtgatt aaaggacgc attgccaca 
gttccgaaa agtactaaa caattttac gcttttcaa 
gaaattcca tacgcagct ccgccaatt ggaaaatta 
cgttttcag cctccggta ccagtttca ggatgggat 
aaggtttta gacacaaca aaaaacaca aaaatttgt 
taccaaatt ggtattaat tcgacacag gaaaacgaa 
gactgtctt tacttaaat gtttatact ccaaaattg 
ccgtctagt accagcagt acttcgttg ccagtcatg 
gtttttttc cacggtggg gcatttgcc ataggagac 
tcgaaatat tcgtcatac ggaccccaa tttctcgta 
aaccatgaa gtggtttta gtaacttta aactaccga 
cttggggtt tttggtttt ttgtcaaca caagacaaa 
gttatccct ggcaacaat ggtcttaaa gaccaactg 
cttgcccta caatgggtc aggaaaaat attcactta 
tttggtgga aattcgtca caagttacg atttttggg 
caaagtgct ggcgctgcc tcagttggt tatcatcta 
gttagcaag aaatcaaga gggttgtac cgagctgct 
attatggaa agtagttcg gtgctaaat tcgttcggt 
tatcagaga aatgccaaa cactttgcg caaaaaatc 
gcctcttat attaatgct agtgtaact gaagaagcg 
acttctgaa gaaattttc cgtgttatg cttcgtgct 
tcatctacc gaaattgac gcagcggct gataaaata 
gcgtctgag gaaagttac aacagcgct caattattt 
caaggctac tattttgca cctgttatc gaaccagat 
catgaaaat gcgttctta actgaaaaa atgttcaaa 
attttagac agaggaggc ggtgctaaa gttccagtt 
attgtgggc ataaattct gaagaaagt ttgagtcga 
aacacagat atcaatttt ttgaaacgt ctgatgaaa 
ctatatgac gacgatttg aaagctctt gttccaaat 
aacatgaac attgttgac gaaaatgcc aaagtggag 
gcaggcaaa cttatacgt aaattgtac agtggtgaa 
gatttgtta caaaatgtt gcagcagct ggaataaga 
tacatgagc gatacgtcg tttacaaga gcggtaatt 
aaatttgct tcattacag tctaaatat tccgatgtc 
tacttttac caattctca tatgatggt caagtaggc 
aatatttct gtaacagtt gaaggggct gaacgtgta 
ggtcataat gaggaactt tcatatctt tggcgaatt 
cgaaccgaa gcaactaat aatgatttg tcagctttt 
agtcaaaat gattttaca acacaacat cgcttgctc 
aaactttgg actaatttt gcaaaaact ttaaatcca 
acacctgag aaaactgaa cttttccaa aatgttatt 
tggccgaaa gtattacca gacaacgat tttccgtat 
ctagatatc gacgaaaat ttacaagta aagaattat 
ccaaagaac gaaagtttc agggggtgg gaaaggata 
tacgaacaa tatggaaac ggaaactac gatacatat 
taa
    mRNA sequence
    • >TC015089 RA
      tcgaaataa atgacaagt ttcctgttt gaatctagt 
acaaatttt ggcgttcgt actatcgca ctcaaactg 
ttccaacaa tgaaaccaa tattatggt cttacatcg 
gagtacttt taatcaatg aaggcctgt gttgcatat 
ttttgagat taaacgaag gagtgatta aaggacgca 
ttgccacag ttccgaaaa gtactaaac aattttacg 
cttttcaag aaattccat acgcagctc cgccaattg 
gaaaattac gttttcagc ctccggtac cagtttcag 
gatgggata aggttttag acacaacaa aaaacacaa 
aaatttgtt accaaattg gtattaatt cgacacagg 
aaaacgaag actgtcttt acttaaatg tttatactc 
caaaattgc cgtctagta ccagcagta cttcgttgc 
cagtcatgg tttttttcc acggtgggg catttgcca 
taggagact cgaaatatt cgtcatacg gaccccaat 
ttctcgtaa accatgaag tggttttag taactttaa 
actaccgac ttggggttt ttggttttt tgtcaacac 
aagacaaag ttatccctg gcaacaatg gtcttaaag 
accaactgc ttgccctac aatgggtca ggaaaaata 
ttcacttat ttggtggaa attcgtcac aagttacga 
tttttgggc aaagtgctg gcgctgcct cagttggtt 
atcatctag ttagcaaga aatcaagag ggttgtacc 
gagctgcta ttatggaaa gtagttcgg tgctaaatt 
cgttcggtt atcagagaa atgccaaac actttgcgc 
aaaaaatcg cctcttata ttaatgcta gtgtaactg 
aagaagcga cttctgaag aaattttcc gtgttatgc 
ttcgtgctt catctaccg aaattgacg cagcggctg 
ataaaatag cgtctgagg aaagttaca acagcgctc 
aattatttc aaggctact attttgcac ctgttatcg 
aaccagatc atgaaaatg cgttcttaa ctgaaaaaa 
tgttcaaaa ttttagaca gaggaggcg gtgctaaag 
ttccagtta ttgtgggca taaattctg aagaaagtt 
tgagtcgaa acacagata tcaattttt tgaaacgtc 
tgatgaaac tatatgacg acgatttga aagctcttg 
ttccaaata acatgaaca ttgttgacg aaaatgcca 
aagtggagg caggcaaac ttatacgta aattgtaca 
gtggtgaag atttgttac aaaatgttg cagcagctg 
gaataagat acatgagcg atacgtcgt ttacaagag 
cggtaatta aatttgctt cattacagt ctaaatatt 
ccgatgtct acttttacc aattctcat atgatggtc 
aagtaggca atatttctg taacagttg aaggggctg 
aacgtgtag gtcataatg aggaacttt catatcttt 
ggcgaattc gaaccgaag caactaata atgatttgt 
cagctttta gtcaaaatg attttacaa cacaacatc 
gcttgctca aactttgga ctaattttg caaaaactt 
taaatccaa cacctgaga aaactgaac ttttccaaa 
atgttattt ggccgaaag tattaccag acaacgatt 
ttccgtatc tagatatcg acgaaaatt tacaagtaa 
agaattatc caaagaacg aaagtttca gggggtggg 
aaaggatat acgaacaat atggaaacg gaaactacg 
atacatatt aattcttta cttgtgtat atttacaaa 
tgtttttta tttcagtaa taaaagttt atgtcgttg

    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