Status
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Gene information
General information
TC009389 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: 1441289..1449884
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
    		TC009389
    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_01544

    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

    Fertility
    ovary size decreased - Number of animals showing the phenotype: 4
    vitellogenic egg chamber number decreased - Number of animals showing the phenotype: 4
    mature egg not present - Number of animals showing the phenotype: 4
    previtellogenic egg chamber mostly not present - Number of animals showing the phenotype: 4

    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: 80.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    pupal molt not fulfilled (died as prepupa) - Number of animals showing the phenotype: 6 (11 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009389 RA
      MGDKVDDTI IKLVRNLKS TVEDEPDFT LGSPYKLSL 
SSVSNDSQC SSEEFLKVK RPKRESLLN VSYAGSPRE 
IRRLRTDIL ESRNTILNL ENRIQHMHS VRKEVELMY 
ENETKLLKK QHEHDRKSI EELEAQLVS IRQREAELK 
KQLAEVTSN YNMLKVQKD EVIEELEKS LSEMKEESR 
LFDGEENIE IVALNRKLA EMQMMLDAA EEDADAQKK 
LVLELEKQL AEKNAIDRE IEKKEQALQ IANLRIKEL 
EYAKENFLE FQDQAKSQA KKLANYSDM VREVEKLRE 
ENVRLKDEV KNKLLLEEE VHDLKSRLV KYKEQEKKL 
ANLEAEKVQ TGIYLDEWR AVARGICET VGSDSSLPH 
LLRSAVEKL QQQEISLTS TKVELESQL TAALYDAKV 
AKAEIEKSH KLISELKKT GEQKQALLH RMQKKLSLV 
SRERDSYRL QLDSYEKDL TMSINPSTI ANSNQLQTQ 
RERIVALEK IIESYKELN AKLESDLQN TNPALYSDN 
PNSRAEQLT KLQEEVDQL RMENEMLKQ RRDQLEIQL 
ENYLVGNDT LQGGQVYHL ANNPLAECL AEREKLVEK 
LEQEIEKLK RKLKNMSEG IDASKLSES MCPQEVQAL 
KEQVKTHEV QTQRLKEYF KTSFQEFRN VIYMLLGYK 
IDRTPTSLY KLTNIYAER AEDQLCFQL NSEGDLNLL 
ENEFSASLE QMVNLHLRH QKSIPVFLS ALTIDLFNN 
STMATKTYE IE
    CDS sequence
    • >TC009389 RA
      atgggcgac aaagtagac gacactatc ataaagttg 
gtgaggaat ttgaagtcg acggtcgag gacgagccc 
gatttcacc ctgggcagc ccctacaaa ctttctctg 
agttcggtc tcgaacgac agccaatgc agttccgag 
gagttcctc aaagtcaag cgaccaaag cgcgaaagt 
ttgctaaat gtgtcctac gcggggtct cctcgcgag 
atccgacgt ttgcggacc gatatcttg gagagtcgg 
aacacgatt ttgaatttg gagaaccgg atccaacac 
atgcacagt gtgcgcaag gaggtcgag ttaatgtac 
gagaatgag acaaagttg ttgaagaag caacacgaa 
catgaccgg aagagtatc gaagagttg gaagcgcag 
ttggtctca atcaggcaa agggaagcc gagttgaag 
aaacaactt gctgaggtg accagcaac tacaacatg 
ctgaaggtg caaaaggac gaagtgatt gaagaactt 
gagaaaagt ctgtccgag atgaaggaa gagtcgcgg 
ctttttgac ggtgaagaa aacattgaa attgtggcg 
ttgaatcgg aagttggcc gagatgcaa atgatgctg 
gacgccgct gaagaagac gccgacgct cagaaaaaa 
ttagtgctt gaattagag aaacagttg gcagaaaag 
aacgccata gacagggaa atcgagaag aaggaacaa 
gcgctccaa attgccaat ttgcgcata aaagagttg 
gaatatgcc aaagaaaat tttttggaa ttccaagat 
caagccaaa agtcaagcg aaaaaattg gctaactac 
agtgatatg gtcagggaa gttgaaaaa ctgagggaa 
gaaaacgtc cggttgaaa gacgaagtt aagaacaaa 
ctattactg gaagaggaa gttcacgat ttgaagtca 
cgtttggtt aaatataaa gaacaggag aagaaattg 
gcgaattta gaagctgaa aaagttcaa actggaatt 
tatttagat gagtggcga gctgtagct cgtggaatt 
tgcgaaaca gtgggttcg gactcgtct ttgcctcat 
cttttacgt tcagctgtt gaaaaattg caacaacag 
gagatttcg ttaacttcg accaaagtt gaattggaa 
tcgcaatta accgctgca ttatacgac gccaaagtt 
gcaaaagct gagattgaa aaaagccac aaacttatt 
tcggagctg aagaaaacc ggtgaacaa aaacaggcg 
cttttgcac cgtatgcag aaaaaactg tcgttggtc 
agtcgggag agggacagt tatcggctt cagctcgat 
tcctacgag aaggattta acaatgtcg ataaatccg 
tcaacaatt gcaaactcg aatcagctg caaactcag 
cgggagaga atcgtagcg ttggagaaa atcatcgaa 
agttacaag gagttgaat gcaaagttg gagtcggat 
ttgcaaaac actaatcct gcgttgtat tccgataat 
ccgaacagt agagccgaa caattgacg aaattgcag 
gaagaagtg gaccagttg cggatggaa aatgagatg 
ttgaagcaa cgtcgagac caacttgaa attcaattg 
gaaaactac cttgtaggc aatgatacg ctccaaggg 
ggccaggtt taccacttg gcgaacaac ccgctagcc 
gagtgtttg gcagaaagg gagaagttg gtggagaaa 
ttggagcag gagattgag aaattgaaa cggaagttg 
aaaaacatg tccgaaggc atcgatgcg agtaagtta 
agcgagtcg atgtgtccg caagaggtc caagcgttg 
aaagaacaa gtcaaaacg cacgaagtc caaacgcag 
cgactcaaa gaatatttc aaaacgtcg tttcaggaa 
tttcgcaat gttatctac atgttactt ggttataaa 
atcgatcgg actccgacg tcgttgtat aaactaacg 
aatatttac gcggaacgg gccgaggat cagttgtgc 
ttccagttg aatagtgaa ggtgattta aatttgctt 
gaaaacgag tttagcgca agtcttgag caaatggtc 
aacttgcat ttaagacac caaaagtcg attcccgtt 
tttctgagt gccctcact atagatttg ttcaacaat 
agcacgatg gcaacaaag acttatgag attgagtaa
    mRNA sequence
    • >TC009389 RA
      gttctgtct gcaagcctt tcctcagat aagataaat 
aaaaatgtc agcaaaccg tcggaaaag tgtcccaag 
tgtatgggg cctgctcgt agctttcgc gtagaatgt 
gataccact gaagtgtgg ttttgtgag acaagtaaa 
agtgaggtt ggtttcgtc gccccttgt caaaatggg 
cgacaaagt agacgacac tatcataaa gttggtgag 
gaatttgaa gtcgacggt cgaggacga gcccgattt 
caccctggg cagccccta caaactttc tctgagttc 
ggtctcgaa cgacagcca atgcagttc cgaggagtt 
cctcaaagt caagcgacc aaagcgcga aagtttgct 
aaatgtgtc ctacgcggg gtctcctcg cgagatccg 
acgtttgcg gaccgatat cttggagag tcggaacac 
gattttgaa tttggagaa ccggatcca acacatgca 
cagtgtgcg caaggaggt cgagttaat gtacgagaa 
tgagacaaa gttgttgaa gaagcaaca cgaacatga 
ccggaagag tatcgaaga gttggaagc gcagttggt 
ctcaatcag gcaaaggga agccgagtt gaagaaaca 
acttgctga ggtgaccag caactacaa catgctgaa 
ggtgcaaaa ggacgaagt gattgaaga acttgagaa 
aagtctgtc cgagatgaa ggaagagtc gcggctttt 
tgacggtga agaaaacat tgaaattgt ggcgttgaa 
tcggaagtt ggccgagat gcaaatgat gctggacgc 
cgctgaaga agacgccga cgctcagaa aaaattagt 
gcttgaatt agagaaaca gttggcaga aaagaacgc 
catagacag ggaaatcga gaagaagga acaagcgct 
ccaaattgc caatttgcg cataaaaga gttggaata 
tgccaaaga aaatttttt ggaattcca agatcaagc 
caaaagtca agcgaaaaa attggctaa ctacagtga 
tatggtcag ggaagttga aaaactgag ggaagaaaa 
cgtccggtt gaaagacga agttaagaa caaactatt 
actggaaga ggaagttca cgatttgaa gtcacgttt 
ggttaaata taaagaaca ggagaagaa attggcgaa 
tttagaagc tgaaaaagt tcaaactgg aatttattt 
agatgagtg gcgagctgt agctcgtgg aatttgcga 
aacagtggg ttcggactc gtctttgcc tcatctttt 
acgttcagc tgttgaaaa attgcaaca acaggagat 
ttcgttaac ttcgaccaa agttgaatt ggaatcgca 
attaaccgc tgcattata cgacgccaa agttgcaaa 
agctgagat tgaaaaaag ccacaaact tatttcgga 
gctgaagaa aaccggtga acaaaaaca ggcgctttt 
gcaccgtat gcagaaaaa actgtcgtt ggtcagtcg 
ggagaggga cagttatcg gcttcagct cgattccta 
cgagaagga tttaacaat gtcgataaa tccgtcaac 
aattgcaaa ctcgaatca gctgcaaac tcagcggga 
gagaatcgt agcgttgga gaaaatcat cgaaagtta 
caaggagtt gaatgcaaa gttggagtc ggatttgca 
aaacactaa tcctgcgtt gtattccga taatccgaa 
cagtagagc cgaacaatt gacgaaatt gcaggaaga 
agtggacca gttgcggat ggaaaatga gatgttgaa 
gcaacgtcg agaccaact tgaaattca attggaaaa 
ctaccttgt aggcaatga tacgctcca agggggcca 
ggtttacca cttggcgaa caacccgct agccgagtg 
tttggcaga aagggagaa gttggtgga gaaattgga 
gcaggagat tgagaaatt gaaacggaa gttgaaaaa 
catgtccga aggcatcga tgcgagtaa gttaagcga 
gtcgatgtg tccgcaaga ggtccaagc gttgaaaga 
acaagtcaa aacgcacga agtccaaac gcagcgact 
caaagaata tttcaaaac gtcgtttca ggaatttcg 
caatgttat ctacatgtt acttggtta taaaatcga 
tcggactcc gacgtcgtt gtataaact aacgaatat 
ttacgcgga acgggccga ggatcagtt gtgcttcca 
gttgaatag tgaaggtga tttaaattt gcttgaaaa 
cgagtttag cgcaagtct tgagcaaat ggtcaactt 
gcatttaag acaccaaaa gtcgattcc cgtttttct 
gagtgccct cactataga tttgttcaa caatagcac 
gatggcaac aaagactta tgagattga gtaatttaa 
taccatttt ttaattagt tcgcttagc aaatataca 
gtttaataa gaa

    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