Status
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Gene information
General information
TC009445 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: 1149154..1152524
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
    		TC009445
    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
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    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_06272

    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: 40.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection

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

    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009445 RA
      MQAKTDLVI GIDLGTTNS SAAYYFKEK VRVVENKEG 
DRITPSCVY FRDQNTVIV GKYARKMAE QSNQSEVFG 
IKRFIGKQF DDPDLRNDL RHVPFTIES IENKPIVTI 
NHKSGVCKK TPEEVSALV LQKVKTDVE SKLGERVNK 
AVITVPAYF NVSQREATL EAAQKAGFT VLKLLNEPT 
AAAFCYYVD QNWGEESYS LVYDLGGGT FDVAILKNC 
RQNIDIVGV DGDTHLGGH DFDNLIIDY VCDILLKEY 
DYNPKDDRR NMRRLRSIC EEAKQTLSD LEETIIILP 
AFTKKHDII NINITREQF ESMAQMLFQ RTIDIVDKC 
LTTCNIAKT EIKEVILSG GSTRIPEIQ NLLSSYFGG 
KELCKFTHP GECVAEGAA IQAAILSTN PDQKINTIQ 
IKDVISLSL GIDVHFNLM FFIIKRNRS IPIKKTKSL 
ITIFNQQSA MSINIYEGE RTDVRKNRH LGTLKITNL 
TPAPPGQCE VHVIMSVDQ NGILTFRAK EKFRNNEKD 
LKLLYTRGG RSDSEVKSI LQKVEDQAE EDERFEKFA 
MKKTVLFNY CETVIYNLE SKNLSSSYK EVYDLCKDT 
QNKLESLEL GSEDQVNPL VEAAKSKCD SLVRQYNFD 
YMFDL
    CDS sequence
    • >TC009445 RA
      atgcaggca aaaaccgat ttagtcatt ggtatcgat 
ctgggaaca acaaattcg tctgccgcc tattatttt 
aaagaaaaa gtcagagtt gtagaaaat aaagaaggt 
gatcgaatt accccatct tgtgtgtat tttcgtgac 
caaaatacg gtaattgtt ggaaaatat gcccgaaaa 
atggctgag caatcaaat caaagtgaa gtttttgga 
attaagcga tttattgga aaacagttt gatgatcct 
gatcttcga aacgattta agacacgtt ccattcaca 
attgaatca attgagaac aaaccgata gtcacgatt 
aatcataaa agtggtgtt tgtaaaaag actcctgaa 
gaagtaagt gcacttgtt cttcagaaa gttaagaca 
gacgtcgaa tcgaaacta ggagaacgt gtaaataaa 
gctgtaatt actgttccg gcttacttt aacgtaagt 
caacgtgag gctacttta gaagcggca caaaaagct 
ggatttact gtattaaaa cttctaaat gaacctaca 
gctgctgcg ttctgttac tacgtggac caaaattgg 
ggtgaagaa agttattcg ttggtttat gatttagga 
ggtgggact ttcgacgtt gccattctt aagaactgt 
cgtcaaaat attgatatt gttggagtt gatggtgat 
acacattta gggggccac gacttcgac aatttgatt 
atagattac gtttgtgat attttattg aaagaatat 
gattacaat cccaaggat gacagaaga aacatgaga 
agattacgt agcatatgt gaagaggcc aaacaaaca 
ttatcagat ctggaagag actattata atactcccg 
gcatttaca aaaaaacat gatattatt aacattaac 
atcacacga gaacagttt gaatcaatg gcccaaatg 
ttgtttcaa agaaccata gacattgtc gataagtgt 
ttaacaact tgcaacatt gcaaagaca gagataaag 
gaagtaatc ctatcaggc ggttctaca cgaattcca 
gaaatacaa aatttactt tcgtcatat ttcggtgga 
aaagaatta tgcaagttt acacatcct ggcgaatgc 
gtagctgaa ggagcggcg attcaagca gctattctg 
tccaccaat ccagatcaa aagataaat actattcaa 
ataaaagat gttatttct ttgtctctt ggtatagat 
gttcatttc aatttaatg tttttcatt ataaagcga 
aacagatca attcctata aaaaagaca aaaagtcta 
ataactatt ttcaatcaa caatccgca atgtctata 
aacatatac gaaggagaa cgcaccgat gttagaaaa 
aaccgtcac ttgggcact ctaaaaatt accaactta 
acaccagca ccacctgga caatgcgaa gttcacgtg 
atcatgagc gtcgatcaa aatggcatc cttacattt 
agagcaaaa gaaaaattt cgaaataac gaaaaggat 
ctaaaatta ttatacaca cgaggcggc cgaagtgat 
agtgaagta aaaagcatt ttacaaaaa gttgaagac 
caagccgaa gaagacgaa cgatttgaa aaatttgcg 
atgaagaaa acagttctt ttcaattac tgtgaaaca 
gtaatatac aatctagaa agcaagaac ttaagctcg 
tcgtacaaa gaagtttat gatctttgt aaagacaca 
caaaataaa ttagaatca ctggaacta ggaagtgaa 
gaccaagta aatccactc gtcgaagct gctaaatca 
aaatgcgat tcacttgtg cggcagtat aattttgat 
tacatgttt gatttgtaa
    mRNA sequence
    • >TC009445 RA
      gcagaagtg aaagagaag ataaaacta agttagagc 
aaacgaagc agttttagc agttttgtt tgtctttta 
cacaaacat gcaggcaaa aaccgattt agtcattgg 
tatcgatct gggaacaac aaattcgtc tgccgccta 
ttattttaa agaaaaagt cagagttgt agaaaataa 
agaaggtga tcgaattac cccatcttg tgtgtattt 
tcgtgacca aaatacggt aattgttgg aaaatatgc 
ccgaaaaat ggctgagca atcaaatca aagtgaagt 
ttttggaat taagcgatt tattggaaa acagtttga 
tgatcctga tcttcgaaa cgatttaag acacgttcc 
attcacaat tgaatcaat tgagaacaa accgatagt 
cacgattaa tcataaaag tggtgtttg taaaaagac 
tcctgaaga agtaagtgc acttgttct tcagaaagt 
taagacaga cgtcgaatc gaaactagg agaacgtgt 
aaataaagc tgtaattac tgttccggc ttactttaa 
cgtaagtca acgtgaggc tactttaga agcggcaca 
aaaagctgg atttactgt attaaaact tctaaatga 
acctacagc tgctgcgtt ctgttacta cgtggacca 
aaattgggg tgaagaaag ttattcgtt ggtttatga 
tttaggagg tgggacttt cgacgttgc cattcttaa 
gaactgtcg tcaaaatat tgatattgt tggagttga 
tggtgatac acatttagg gggccacga cttcgacaa 
tttgattat agattacgt ttgtgatat tttattgaa 
agaatatga ttacaatcc caaggatga cagaagaaa 
catgagaag attacgtag catatgtga agaggccaa 
acaaacatt atcagatct ggaagagac tattataat 
actcccggc atttacaaa aaaacatga tattattaa 
cattaacat cacacgaga acagtttga atcaatggc 
ccaaatgtt gtttcaaag aaccataga cattgtcga 
taagtgttt aacaacttg caacattgc aaagacaga 
gataaagga agtaatcct atcaggcgg ttctacacg 
aattccaga aatacaaaa tttactttc gtcatattt 
cggtggaaa agaattatg caagtttac acatcctgg 
cgaatgcgt agctgaagg agcggcgat tcaagcagc 
tattctgtc caccaatcc agatcaaaa gataaatac 
tattcaaat aaaagatgt tatttcttt gtctcttgg 
tatagatgt tcatttcaa tttaatgtt tttcattat 
aaagcgaaa cagatcaat tcctataaa aaagacaaa 
aagtctaat aactatttt caatcaaca atccgcaat 
gtctataaa catatacga aggagaacg caccgatgt 
tagaaaaaa ccgtcactt gggcactct aaaaattac 
caacttaac accagcacc acctggaca atgcgaagt 
tcacgtgat catgagcgt cgatcaaaa tggcatcct 
tacatttag agcaaaaga aaaatttcg aaataacga 
aaaggatct aaaattatt atacacacg aggcggccg 
aagtgatag tgaagtaaa aagcatttt acaaaaagt 
tgaagacca agccgaaga agacgaacg atttgaaaa 
atttgcgat gaagaaaac agttctttt caattactg 
tgaaacagt aatatacaa tctagaaag caagaactt 
aagctcgtc gtacaaaga agtttatga tctttgtaa 
agacacaca aaataaatt agaatcact ggaactagg 
aagtgaaga ccaagtaaa tccactcgt cgaagctgc 
taaatcaaa atgcgattc acttgtgcg gcagtataa 
ttttgatta catgtttga tttgtaatt tttaacata 
gcagacaaa tgtatgatc aacgaacca taattttta 
cgtttgaca gaacagaga gaattttaa gttttagta 
attatcaac tgtagtttt tagggcgac ttttctttg 
atttgttaa aaaatactg ggaaaataa aaaaataat 
ttttca

    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