Status
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Gene information
General information
TC000109 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: 11050600..11052505
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
    		TC000109
    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_00023

    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: 30.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection

    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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection

    pupation delayed (still prepupa) - Number of animals showing the phenotype: 7 (11 dpi)
    Days post injection

    pupal molt not fulfilled (died as prepupa) - Number of animals showing the phenotype: 7 (19 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC000109 RA
      MDLFVINRH GDSKPEVTA EEETAKLAT VLKRIERKK 
QQRIRQRER EREKRQTPK KNPKQKTTV PKRPPKTPE 
ADEFIEPQP KIKRPPDLK SFTILGAST AAKKPKADR 
VLPQWLANP TVISSDLQE LTCKVSKLK ELDKGLREQ 
LKANGVKYL FPVQAEVIP WVLQSRQNA DIMFPRDVC 
VSAPTGSGK TLAFVLPVV QTLKQFTVR KIRALVILP 
TQDLAEQVF KSFKLYTQG TRIEVGLVS GKQMFQAEQ 
KQLVYFNEC FGFVSKIDI LVCTAGRLV NHLKSTNGF 
NLQALEFLI IDEADRVLE SVQDDWLYH LEKHIYTIQ 
NRKVLNVCT LQRQRAPQK LLFSATLTQ DPEKIEKLS 
LFQPKLFTS SVVENSNES EEKPMILTG KYTTPKELT 
EKYIVCSKD VKPLVLYAF LKRENLTKT LVFTHSVES 
AHRLKILLK SLFKKRLKI EEISSNLKG KSRDEFISS 
FTKGEVDLL ICTDFLARG IDLPGVNCV ISYSAPKYL 
KTYIHRAGR TARAGESGL AVTLLHEEQ VPAFKTLLK 
KEIEEVEVG VEELEGLSE KYKKALGKL KEAVNEEQK 
VGMESVLSK KKAFKKLKK KVINSVK
    CDS sequence
    • >TC000109 RA
      atggatttg tttgtgata aatcgtcac ggcgactcc 
aagccggaa gtgacggcc gaggaggaa accgccaaa 
ctcgccaca gtcctcaaa cgaatcgaa cgcaagaag 
cagcagcgt atccgtcag cgagagcgc gaacgtgaa 
aagcgccag accccgaaa aaaaacccg aaacaaaaa 
accacagtc cccaaacgc ccgcctaaa acccccgaa 
gcagacgaa ttcatcgaa cctcaaccg aaaattaaa 
cggccccca gatctgaaa agtttcaca attctgggg 
gcctcaaca gcggcgaaa aaaccgaaa gctgaccgg 
gttttgccc cagtggctc gccaacccc actgtgata 
tcgtcagac ttgcaggaa ttgacctgt aaagtgtcc 
aagttgaag gagttggat aaggggctc agggagcaa 
ttgaaggcc aacggggtc aagtatttg tttccggtg 
caggcggaa gtgatcccg tgggtgttg caatcgcgc 
caaaatgcc gatatcatg ttcccgagg gacgtgtgc 
gtgagtgcg cccaccgga agtgggaaa actctcgcg 
ttcgttttg ccagtggtt cagactttg aaacagttc 
actgtgagg aaaatcagg gctttggtg attttgccg 
acgcaagat ttggccgaa caagtgttt aaaagcttc 
aagttgtac acgcaaggg acgcgaatc gaagtgggc 
ctggtctca ggcaaacaa atgtttcaa gctgagcaa 
aaacaattg gtttatttc aacgagtgc tttgggttt 
gtgagcaaa attgacatt cttgtatgc acggctggt 
cggttagtg aaccattta aaatcgacc aatggtttt 
aatttacaa gcgctcgaa tttttgata attgacgaa 
gctgatcgt gttttggaa agtgttcaa gacgattgg 
ttgtatcat ttggagaaa cacatttac acgattcaa 
aacaggaaa gttttaaat gtgtgtact ttacagaga 
caaagggcg cctcagaaa ctcctcttt tcggcgact 
ttgacccaa gaccccgaa aaaatcgaa aaattatca 
cttttccaa ccgaagctt ttcacttca tcggtcgtg 
gaaaactcc aacgaaagt gaggaaaaa cccatgatt 
ttgaccgga aaatacaca acaccgaaa gaattaacg 
gagaaatac atcgtctgt tctaaagac gtcaaacca 
ctcgttttg tacgcgttc ctcaaacgt gaaaatttg 
actaaaact ttggttttt actcattca gtcgaaagt 
gcccacagg cttaaaatc ctccttaaa tcactcttt 
aaaaaacgg ttaaaaatc gaggaaatt tcctcaaat 
ttgaagggg aaaagccga gatgaattt atttcaagt 
ttcacaaaa ggtgaagtt gatttattg atttgtaca 
gattttttg gctcgaggg attgacttg ccgggggtt 
aattgcgtg atttcttat tcagccccc aaatatttg 
aaaacgtac atacacaga gccgggagg acagctagg 
gcgggtgaa tcggggttg gctgtgacg ctactacat 
gaggaacaa gtgccggcg tttaaaacc ttgttgaag 
aaagaaatt gaggaggtt gaggttggg gttgaagaa 
ttggagggg ttgagtgaa aaatataag aaggcgtta 
gggaagctc aaggaggcg gttaacgag gagcaaaaa 
gtggggatg gagagtgtt ttgtccaag aaaaaggct 
ttcaagaag ctcaagaaa aaggttatt aattcggtt 
aaatag
    mRNA sequence
    • >TC000109 RA
      gttgtcaaa aaacgaacg taacctcaa attcgcaca 
tgtcttgaa cagtaaatt tggcccaaa aaatggatt 
tgtttgtga taaatcgtc acggcgact ccaagccgg 
aagtgacgg ccgaggagg aaaccgcca aactcgcca 
cagtcctca aacgaatcg aacgcaaga agcagcagc 
gtatccgtc agcgagagc gcgaacgtg aaaagcgcc 
agaccccga aaaaaaacc cgaaacaaa aaaccacag 
tccccaaac gcccgccta aaacccccg aagcagacg 
aattcatcg aacctcaac cgaaaatta aacggcccc 
cagatctga aaagtttca caattctgg gggcctcaa 
cagcggcga aaaaaccga aagctgacc gggttttgc 
cccagtggc tcgccaacc ccactgtga tatcgtcag 
acttgcagg aattgacct gtaaagtgt ccaagttga 
aggagttgg ataaggggc tcagggagc aattgaagg 
ccaacgggg tcaagtatt tgtttccgg tgcaggcgg 
aagtgatcc cgtgggtgt tgcaatcgc gccaaaatg 
ccgatatca tgttcccga gggacgtgt gcgtgagtg 
cgcccaccg gaagtggga aaactctcg cgttcgttt 
tgccagtgg ttcagactt tgaaacagt tcactgtga 
ggaaaatca gggctttgg tgattttgc cgacgcaag 
atttggccg aacaagtgt ttaaaagct tcaagttgt 
acacgcaag ggacgcgaa tcgaagtgg gcctggtct 
caggcaaac aaatgtttc aagctgagc aaaaacaat 
tggtttatt tcaacgagt gctttgggt ttgtgagca 
aaattgaca ttcttgtat gcacggctg gtcggttag 
tgaaccatt taaaatcga ccaatggtt ttaatttac 
aagcgctcg aatttttga taattgacg aagctgatc 
gtgttttgg aaagtgttc aagacgatt ggttgtatc 
atttggaga aacacattt acacgattc aaaacagga 
aagttttaa atgtgtgta ctttacaga gacaaaggg 
cgcctcaga aactcctct tttcggcga ctttgaccc 
aagaccccg aaaaaatcg aaaaattat cacttttcc 
aaccgaagc ttttcactt catcggtcg tggaaaact 
ccaacgaaa gtgaggaaa aacccatga ttttgaccg 
gaaaataca caacaccga aagaattaa cggagaaat 
acatcgtct gttctaaag acgtcaaac cactcgttt 
tgtacgcgt tcctcaaac gtgaaaatt tgactaaaa 
ctttggttt ttactcatt cagtcgaaa gtgcccaca 
ggcttaaaa tcctcctta aatcactct ttaaaaaac 
ggttaaaaa tcgaggaaa tttcctcaa atttgaagg 
ggaaaagcc gagatgaat ttatttcaa gtttcacaa 
aaggtgaag ttgatttat tgatttgta cagattttt 
tggctcgag ggattgact tgccggggg ttaattgcg 
tgatttctt attcagccc ccaaatatt tgaaaacgt 
acatacaca gagccggga ggacagcta gggcgggtg 
aatcggggt tggctgtga cgctactac atgaggaac 
aagtgccgg cgtttaaaa ccttgttga agaaagaaa 
ttgaggagg ttgaggttg gggttgaag aattggagg 
ggttgagtg aaaaatata agaaggcgt tagggaagc 
tcaaggagg cggttaacg aggagcaaa aagtgggga 
tggagagtg ttttgtcca agaaaaagg ctttcaaga 
agctcaaga aaaaggtta ttaattcgg ttaaatagc 
aattgtttt gaagtaata aaatatttt ttgtttc

    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