Status
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Gene information
General information
TC009118 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_007422.5: 4803036..4812174
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
    		TC009118
    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
    {{ blurEvidenceResult }}
    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_01476

    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: 2 (3 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 leg musculature sometimes not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    Comment: body wall musculature without detectable defect
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): less than 30%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    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: 50.0% (includes death as larva, prepupa, pupa, adult)

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

    pupal molt delayed (still prepupa) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (19 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (41 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009118 RA
      MLWILLFLL SLGSIQALP QGAPTKVCQ TMKPFHGGG 
IPPQQDIAP YSIYMRRFN GGVLVTLIS DLGIPFQGF 
MLQARTPNR ELLGVFQPR GNGSHTIDC AQSGDTLTH 
NDANNKAMV EVEWHPPEG YEGPVVFNT TIAQNYQTF 
WVGVESRTL KVSKGFTDD PISNIPSRR PSSSTPPSF 
SPEIREVET VFDPFYEGC GVTKLCFGA PANCINSKN 
CKAVVGVIV SGDKYEFEM KATGNAGWV GVGLSDDDK 
MGDDSVIEC VKRGSNVAA FMSWTSGPP SYGAARLNN 
PQLGIKLVN ASIINDVLY CKVMRDERT KVRGKIFDL 
ANEKYHILV ASGSQVSPN SVAFHDLAF LASGNKQSL 
SDVSALAAA SKLLIRLHG SFMLAAWIG TVSVGILLA 
RYYRNTWVG SSLCGKDLW FAWHRMFMV LTWALTVTG 
FVLIFVELR AWSAEKNPH AILGTVTTI ICFIQPIGA 
YFRPHPGTP KRPVFNWIH WLGGNVAHI IGIVTIFFA 
VKLTKAELP DFVDWILVA YVAFHVIIH LILSVVGCI 
SEKSFERRV TSFPMKDLG GSGRSSAYA DRSGDAPYS 
GFRKFILAV YIVIVLAIV VALIVITAL APIEESWNN 
LRNSMMNAK
    CDS sequence
    • >TC009118 RA
      atgctctgg atcctcctc ttcctcctt tccctcggc 
tcgatccag gcccttccc caaggcgcc ccgaccaag 
gtatgccag accatgaag ccgttccac ggaggaggc 
atccctcct cagcaggac attgctcca tactcaatc 
tacatgcgt cggttcaac ggtggcgtt ctcgtgacg 
ctcatatcc gacctggga atcccattc caaggtttc 
atgctccag gccaggacg cccaaccga gagctcctg 
ggagtgttc cagccccga ggaaacggc agtcacacc 
atcgactgc gcgcagtct ggggacacc ctcacccac 
aacgacgcc aacaacaag gcgatggtg gaggtcgag 
tggcacccg ccagagggg tacgagggc ccagtggtc 
ttcaacacg accattgcg caaaattac caaaccttc 
tgggtcggg gtggagtcc cggactttg aaggtgagt 
aaggggttc acagacgac cccatttcg aacatcccg 
agtcggaga ccatcgtcc tccacaccg cccagtttt 
tcccccgag attagggaa gtggagact gtgtttgat 
cccttctat gaaggctgc ggtgtcacc aagctgtgt 
tttggcgca ccggccaat tgcatcaac tcgaagaat 
tgcaaagcc gttgttggc gtgattgtg agtggcgat 
aaatacgag tttgagatg aaagcgacg ggaaatgcc 
ggatgggtg ggtgtgggg ctctcggat gatgataag 
atgggagat gattcggtt attgagtgt gtgaaacgg 
gggagcaac gttgctgcg ttcatgtcg tggaccagt 
gggcctcct agttatggg gctgcgaga cttaataat 
ccacaattg ggcataaaa ctggtgaac gcgagcata 
atcaatgat gttttgtac tgcaaggta atgagagat 
gagaggacg aaagttagg gggaaaatt tttgatctt 
gctaatgaa aagtaccac attcttgta gcgtccggc 
tcgcaagtc agtccaaat tctgtggca ttccacgac 
cttgccttt ctggctagc ggtaacaag caatcactt 
tcggacgtg tcagcactg gctgcggct tccaaactt 
ttaatcaga cttcatggt tctttcatg ttggctgct 
tggatcggt actgtttca gtgggaata cttttagca 
cgttattac agaaatacg tgggttggg agcagcttg 
tgtggaaaa gacctttgg tttgcttgg catcgaatg 
tttatggtg ctgacctgg gccttgact gtgaccggg 
tttgtcttg atttttgtc gaactgaga gcttggtca 
gctgagaaa aacccgcac gctatttta gggactgtt 
acaacgatt atttgcttt atccagccg attggggcg 
tactttagg ccacatcct ggcactccg aagagacct 
gtttttaac tggattcat tggctggga ggcaatgtg 
gcacatatt atcggaatt gttacaatt ttcttcgct 
gttaagtta acaaaagcc gaattgccg gactttgtg 
gactggatt ttggtggca tatgtggcc ttccacgtc 
ataattcat ttaatttta tcggtggtg gggtgtatt 
tccgaaaaa tcgtttgaa agacgagtg acttccttc 
cccatgaaa gatttaggt ggttctgga cgcagttcg 
gcgtatgcg gacagaagc ggtgacgct ccgtactcc 
ggtttccgc aagtttatc ttagccgtt tacattgta 
atagtgcta gctatcgtc gttgcattg attgtcata 
acagcccta gcacccatc gaagaatct tggaataat 
ttgcgaaac tcgatgatg aatgccaaa taa
    mRNA sequence
    • >TC009118 RA
      cgtcacacc tgtcgacct tgcggccaa tgggaggct 
cttgtgtac gctagcatt cactataca ttcaagaat 
tcgagttgg gtaccacgt agtgcgtac ttctgaagc 
atcctttct aacacaatt gtgagtgag gagtggaca 
ataccagcg tggaaatga agtgtattg tgtgattca 
gtatttttc tgaacgaga ttgtgaaaa ttaggtgat 
cggtgtggt gttcagaga gaaatcttc gagtttgtg 
cggctggat taaagtaaa caaggccat gctctggat 
cctcctctt cctcctttc cctcggctc gatccaggc 
ccttcccca aggcgcccc gaccaaggt atgccagac 
catgaagcc gttccacgg aggaggcat ccctcctca 
gcaggacat tgctccata ctcaatcta catgcgtcg 
gttcaacgg tggcgttct cgtgacgct catatccga 
cctgggaat cccattcca aggtttcat gctccaggc 
caggacgcc caaccgaga gctcctggg agtgttcca 
gccccgagg aaacggcag tcacaccat cgactgcgc 
gcagtctgg ggacaccct cacccacaa cgacgccaa 
caacaaggc gatggtgga ggtcgagtg gcacccgcc 
agaggggta cgagggccc agtggtctt caacacgac 
cattgcgca aaattacca aaccttctg ggtcggggt 
ggagtcccg gactttgaa ggtgagtaa ggggttcac 
agacgaccc catttcgaa catcccgag tcggagacc 
atcgtcctc cacaccgcc cagtttttc ccccgagat 
tagggaagt ggagactgt gtttgatcc cttctatga 
aggctgcgg tgtcaccaa gctgtgttt tggcgcacc 
ggccaattg catcaactc gaagaattg caaagccgt 
tgttggcgt gattgtgag tggcgataa atacgagtt 
tgagatgaa agcgacggg aaatgccgg atgggtggg 
tgtggggct ctcggatga tgataagat gggagatga 
ttcggttat tgagtgtgt gaaacgggg gagcaacgt 
tgctgcgtt catgtcgtg gaccagtgg gcctcctag 
ttatggggc tgcgagact taataatcc acaattggg 
cataaaact ggtgaacgc gagcataat caatgatgt 
tttgtactg caaggtaat gagagatga gaggacgaa 
agttagggg gaaaatttt tgatcttgc taatgaaaa 
gtaccacat tcttgtagc gtccggctc gcaagtcag 
tccaaattc tgtggcatt ccacgacct tgcctttct 
ggctagcgg taacaagca atcactttc ggacgtgtc 
agcactggc tgcggcttc caaactttt aatcagact 
tcatggttc tttcatgtt ggctgcttg gatcggtac 
tgtttcagt gggaatact tttagcacg ttattacag 
aaatacgtg ggttgggag cagcttgtg tggaaaaga 
cctttggtt tgcttggca tcgaatgtt tatggtgct 
gacctgggc cttgactgt gaccgggtt tgtcttgat 
ttttgtcga actgagagc ttggtcagc tgagaaaaa 
cccgcacgc tattttagg gactgttac aacgattat 
ttgctttat ccagccgat tggggcgta ctttaggcc 
acatcctgg cactccgaa gagacctgt ttttaactg 
gattcattg gctgggagg caatgtggc acatattat 
cggaattgt tacaatttt cttcgctgt taagttaac 
aaaagccga attgccgga ctttgtgga ctggatttt 
ggtggcata tgtggcctt ccacgtcat aattcattt 
aattttatc ggtggtggg gtgtatttc cgaaaaatc 
gtttgaaag acgagtgac ttccttccc catgaaaga 
tttaggtgg ttctggacg cagttcggc gtatgcgga 
cagaagcgg tgacgctcc gtactccgg tttccgcaa 
gtttatctt agccgttta cattgtaat agtgctagc 
tatcgtcgt tgcattgat tgtcataac agccctagc 
acccatcga agaatcttg gaataattt gcgaaactc 
gatgatgaa tgccaaata agacattac cagaaagta 
ccaaataat ggcactatg cattatgtt aatgactga 
ttatttttt attgtgaat gttttacag tatgcgaaa 
agctgtgta cttgatagg tttagttga ataaaatgt 
gaccactcc gtactaagc gctacaatt ttagaaaat 
tactaactg cttttgcat tgacgagaa aattttgca 
atcttatgt aaacaggtt accttcatt ggacaatca 
cgcactttt atgtaacag gtattttgt aataattta 
tgtttatga ttactgttt taattatta tttgttagg 
taggtattt ttaattgtc aggggaaac ctgaattag 
attaaaatt taaatatat ttgtaaata aagctatta 
aacattt

    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