Status
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Gene information
General information
TC000113 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_007418.3: 10983996..10988560
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
    		TC000113
    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 *
    {{ 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.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_02977

    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: 10.0% (includes death as pupa, adult)

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

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

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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
    • >TC000113 RA
      MALCEYNNL KEWAPLTDL FSKLPTKVQ NGLFTQDVK 
LTCLDVLPE FLALGTNVG LVYWYDRKK KDLQRLRCE 
KQNVQITVV RIISTVDFM VACGSTDGC INIFQIPKS 
HPDSIPDNL KPKSKQVER FTVSDLHKC PVTALEWSK 
NGMKLFSGD KNGCIVLTE IDFYMHICK SAEILNESY 
QVIQLSYSQ QRLLVSTTY RSIICQRLD KWKVCQVGK 
KDRKILGPF GGLIHQNGP KTTDAVLYC TRPGLRIWV 
ADCDGNVNK TLLFKDLLK KECSEVPII NPISRNLKM 
LKPLKEPSF GVLLPFSEN LILTYNNDV IYVLDPEQM 
TIISTMSHF RSVLGVATH KDEIFILEE DRSVVRISY 
KPEQIPDCD QNSASPVAS MFLPITTSL KDITTKLQT 
GNILPDVNI HTDESLIMN AEEAKESPI KTRANPEIE 
KKFNDIGRQ QFEEKILYR QSNKHRKRM CASMSSLSS 
NSSEEKEGI KPTLMTLSS VGVLPDLRS PESIQNDIE 
YKERILADM LSLDTIKIS LDQLQENNE SCDDDLINE 
PTSSNPEHI PEISDEVVK DSSPLQSSK KQIVHNEAP 
PVCLNIPND WKLADICLN VKTEPEVIP KNDTSLTDN 
SLADWEIV
    CDS sequence
    • >TC000113 RA
      atggccctt tgtgagtac aacaatttg aaagagtgg 
gcccctttg accgacttg ttcagcaag ttgcctacg 
aaagtccag aacgggttg ttcactcaa gacgtgaag 
ttgacctgt ttggacgtt ttgcccgaa tttttggcg 
ttggggacg aacgtgggt ctcgtctat tggtacgat 
aggaaaaag aaggatttg caacgactt cgttgtgag 
aaacaaaac gtacaaata actgtggtt cggatcata 
tcaactgtt gattttatg gtggcttgt gggagcact 
gatgggtgt attaatatt tttcaaatt cctaaatcc 
caccctgac tcgattccg gataatttg aagccgaaa 
agtaagcaa gtggagagg tttacggtg tctgacttg 
cacaaatgt ccagtgacg gcgctcgag tggtctaaa 
aacggaatg aaactcttc tcaggtgat aaaaacgga 
tgcattgtt ttaacagaa attgacttc tatatgcac 
atttgtaaa tcagcggaa attctaaac gaatcgtat 
caagtaatc caactcagt tacagccaa caacgactc 
ctagtctca acaacttac agaagtatc atttgccaa 
agactggac aagtggaaa gtgtgtcaa gtgggcaag 
aaagacagg aaaatttta ggccctttc ggagggcta 
attcatcaa aacggccct aaaactacc gatgcggtt 
ttatattgc acgagaccg gggcttcga atatgggtg 
gctgattgt gacggtaat gtcaataaa actctctta 
tttaaggat ctgttgaaa aaagaatgc tcagaagtg 
ccaataatt aacccgatt tcgcggaat ttaaaaatg 
ctcaagccg ttgaaggaa ccctcattt ggtgtcctg 
cttccgttt agtgaaaat ttaattcta acgtacaat 
aatgacgtg atttatgtc ctagatccg gaacaaatg 
acaattatt tcaaccatg agccatttt cgcagtgtt 
ttgggtgtg gcgacccac aaagacgag attttcatt 
ctggaagag gaccgaagt gtcgtccga atctcctat 
aaaccggaa caaatcccc gattgtgat caaaactcg 
gcttcgcct gtcgctagt atgtttctt ccgatcaca 
acatcgctt aaagatatc acaactaag ctccaaacc 
ggaaatatc ctcccggat gttaacatc cacactgac 
gaatctctc ataatgaac gccgaggaa gcgaaggaa 
tcgcccata aaaacacgt gctaacccc gaaattgag 
aaaaaattc aacgatatt ggacgacaa caattcgag 
gagaaaatc ctgtacagg caaagtaat aagcaccga 
aagcgcatg tgtgcgagt atgagtagt ttgagttcg 
aatagttcg gaggagaag gaagggatc aaaccgact 
ctgatgact ttgagttcg gtcggggtt ttacccgat 
ttgaggagt ccagagtct atacaaaac gatatcgaa 
tacaaagag cgaattctt gccgatatg ctgagtcta 
gatacgatt aagatatca ttagatcaa ttacaagag 
aataatgag agctgtgat gatgattta atcaatgaa 
ccaacttca agtaatcct gaacacatt ccagaaatt 
agtgatgaa gttgtaaaa gattctagc ccactacaa 
agtagtaaa aaacaaata gtacacaac gaagcacct 
cctgtatgt ttaaacatt ccgaatgac tggaagttg 
gccgatatt tgtctaaat gttaaaacc gaaccggaa 
gtaattccg aaaaatgat acgtcgctg actgataat 
tcgttagcg gattgggaa atcgtctaa
    mRNA sequence
    • >TC000113 RA
      tgatgtaag aactgtcat tgtcaaaaa atcacggaa 
tgttttatt tctaaaaat tccgttttt gtaattgag 
ataagccgt gctgtttgt tttgtttat tgttatgcc 
ggcgcggca cgtttcggc acaatggcc ctttgtgag 
tacaacaat ttgaaagag tgggcccct ttgaccgac 
ttgttcagc aagttgcct acgaaagtc cagaacggg 
ttgttcact caagacgtg aagttgacc tgtttggac 
gttttgccc gaatttttg gcgttgggg acgaacgtg 
ggtctcgtc tattggtac gataggaaa aagaaggat 
ttgcaacga cttcgttgt gagaaacaa aacgtacaa 
ataactgtg gttcggatc atatcaact gttgatttt 
atggtggct tgtgggagc actgatggg tgtattaat 
atttttcaa attcctaaa tcccaccct gactcgatt 
ccggataat ttgaagccg aaaagtaag caagtggag 
aggtttacg gtgtctgac ttgcacaaa tgtccagtg 
acggcgctc gagtggtct aaaaacgga atgaaactc 
ttctcaggt gataaaaac ggatgcatt gttttaaca 
gaaattgac ttctatatg cacatttgt aaatcagcg 
gaaattcta aacgaatcg tatcaagta atccaactc 
agttacagc caacaacga ctcctagtc tcaacaact 
tacagaagt atcatttgc caaagactg gacaagtgg 
aaagtgtgt caagtgggc aagaaagac aggaaaatt 
ttaggccct ttcggaggg ctaattcat caaaacggc 
cctaaaact accgatgcg gttttatat tgcacgaga 
ccggggctt cgaatatgg gtggctgat tgtgacggt 
aatgtcaat aaaactctc ttatttaag gatctgttg 
aaaaaagaa tgctcagaa gtgccaata attaacccg 
atttcgcgg aatttaaaa atgctcaag ccgttgaag 
gaaccctca tttggtgtc ctgcttccg tttagtgaa 
aatttaatt ctaacgtac aataatgac gtgatttat 
gtcctagat ccggaacaa atgacaatt atttcaacc 
atgagccat tttcgcagt gttttgggt gtggcgacc 
cacaaagac gagattttc attctggaa gaggaccga 
agtgtcgtc cgaatctcc tataaaccg gaacaaatc 
cccgattgt gatcaaaac tcggcttcg cctgtcgct 
agtatgttt cttccgatc acaacatcg cttaaagat 
atcacaact aagctccaa accggaaat atcctcccg 
gatgttaac atccacact gacgaatct ctcataatg 
aacgccgag gaagcgaag gaatcgccc ataaaaaca 
cgtgctaac cccgaaatt gagaaaaaa ttcaacgat 
attggacga caacaattc gaggagaaa atcctgtac 
aggcaaagt aataagcac cgaaagcgc atgtgtgcg 
agtatgagt agtttgagt tcgaatagt tcggaggag 
aaggaaggg atcaaaccg actctgatg actttgagt 
tcggtcggg gttttaccc gatttgagg agtccagag 
tctatacaa aacgatatc gaatacaaa gagcgaatt 
cttgccgat atgctgagt ctagatacg attaagata 
tcattagat caattacaa gagaataat gagagctgt 
gatgatgat ttaatcaat gaaccaact tcaagtaat 
cctgaacac attccagaa attagtgat gaagttgta 
aaagattct agcccacta caaagtagt aaaaaacaa 
atagtacac aacgaagca cctcctgta tgtttaaac 
attccgaat gactggaag ttggccgat atttgtcta 
aatgttaaa accgaaccg gaagtaatt ccgaaaaat 
gatacgtcg ctgactgat aattcgtta gcggattgg 
gaaatcgtc taaagtgag tcagttatc ttgttaatg 
attatattt gagttgtca taaacaaat cgtgggctt 
actgcaaaa agtggccaa actggccat taaaaaaaa 
tattttttt acatttatt gataccttt tcatgctta 
ttttcattt aaatgcaca ttagtaatt atttctgaa 
aggatctta agaggaaat ggcaaagac gcatttgca 
tgttttgga gtgaa

    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