Status
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Gene information
General information
TC009816 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: 8552535..8554351
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
    		TC009816
    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
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    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_01614

    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
    tropharium irregular - Number of animals showing the phenotype: 4

    previtellogenic egg chamber not present - Number of animals showing the phenotype: 4
    vitellogenic egg chamber degenerated - 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: 20.0% (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

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 8 (16 dpi)
    Days post injection

    Pupal morphology
    eyes sometimes shape irregular - Number of animals showing the phenotype: 4

    Comment: Omatidia affected, but defect not clearly visible. Gena affected.
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009816 RA
      MAEYKSEKI LISFMCQRC SQPIKLDDS LSSFSEHIS 
AELNLPIHS NPDVDLESQ ATSFDQYIP ACRLVDSGN 
GFMLISDEN EVDSLSHAY KKKAALFDT LSGNSNIDH 
PLCDECTDY LLEILEQEL IDTQTDYDD YLRYYKMLQ 
NDTNEPKLS ELEKELEDL KAEGNRFLE ELEALKKEE 
IELQNAIKE QEAEARRLD KERNIYYKE YTKHQKNYT 
QACEDAKSL ECQLNYTQI QLDKLKKTN VFNATFHIW 
HKGHFGTIN NFCLGRLPS APVDWSEIN AAWGQTALL 
LSALARKIN LTFERYRLV PYGNHSYIE VIGEQKEFP 
LYGSGGFKF LWDTKFDNG MAAFLDCLQ QFQEKVEKL 
EKGNKQFCF PYRTNKGKI EDNDASYSI KIQLNSEEQ 
WTKAMKFML TNLKWGLAW ISSQLNNDI EENMQTEN
    CDS sequence
    • >TC009816 RA
      atggcagaa tacaaaagt gaaaaaatc ttaatatcc 
tttatgtgc caaaggtgt tcacaaccg ataaaatta 
gatgattct ttaagttca ttcagtgaa catatttca 
gctgaactg aatttgccc atacattcc aatccagat 
gtagattta gaatcccaa gctacgagt tttgatcag 
tatatccct gcatgtcga ctggttgat tcaggaaat 
ggtttcatg ctgatatca gatgaaaac gaagtagat 
tcacttagt cacgcttat aagaaaaaa gcagcttta 
tttgatact ctctcaggc aactcaaat attgatcac 
cctttgtgt gacgaatgt acagattat ttattagaa 
atactagaa caagaatta atagataca caaaccgat 
tacgatgat tacctcaga tattacaaa atgctccag 
aacgatacg aacgaacca aaactctca gaactggaa 
aaggagttg gaagatttg aaagctgaa ggcaacagg 
tttttggaa gaattggaa gccttgaaa aaggaagaa 
attgagtta caaaacgca atcaaggaa caagaagca 
gaagctagg agacttgac aaggaacgc aatatctac 
tacaaagag tacaccaag catcaaaag aattatact 
caagcttgc gaagatgct aagagtttg gagtgccag 
ttgaattac actcaaatc caactcgac aaactcaag 
aaaaccaac gtcttcaac gcaacgttc cacatctgg 
cacaaaggc cacttcggc accatcaac aatttctgc 
cttggaagg ctgccttcg gctcctgtc gactggtct 
gaaatcaac gcagcttgg ggtcaaact gcactcttg 
ctctctgca cttgcacgc aaaataaat ctgaccttt 
gaaagatac agattagtg ccatacggc aatcactcg 
tacattgag gtaattggc gaacaaaaa gagttccct 
ttgtacggt tcgggcggt tttaagttt ttgtgggac 
actaagttt gacaacgga atggccgcg tttttagat 
tgcttacaa cagtttcag gaaaaggtg gagaaattg 
gaaaagggg aataaacag ttttgtttt ccgtatcga 
acaaataag gggaaaatt gaggacaat gacgcgagt 
tactcaata aaaattcag ttaaattct gaggaacaa 
tggaccaaa gcaatgaaa tttatgtta actaatttg 
aagtggggt ctagcttgg atttcatca cagttaaat 
aacgatata gaagagaat atgcaaacg gaaaattag
    mRNA sequence
    • >TC009816 RA
      tgtttaacg ccaaacaac gatcataaa aggaaagtc 
tatttactt gtgataaat ctgcgtaaa atgtgtaaa 
acaaagtgt taaaatggc agaatacaa aagtgaaaa 
aatcttaat atcctttat gtgccaaag gtgttcaca 
accgataaa attagatga ttctttaag ttcattcag 
tgaacatat ttcagctga actgaattt gcccataca 
ttccaatcc agatgtaga tttagaatc ccaagctac 
gagttttga tcagtatat ccctgcatg tcgactggt 
tgattcagg aaatggttt catgctgat atcagatga 
aaacgaagt agattcact tagtcacgc ttataagaa 
aaaagcagc tttatttga tactctctc aggcaactc 
aaatattga tcacccttt gtgtgacga atgtacaga 
ttatttatt agaaatact agaacaaga attaataga 
tacacaaac cgattacga tgattacct cagatatta 
caaaatgct ccagaacga tacgaacga accaaaact 
ctcagaact ggaaaagga gttggaaga tttgaaagc 
tgaaggcaa caggttttt ggaagaatt ggaagcctt 
gaaaaagga agaaattga gttacaaaa cgcaatcaa 
ggaacaaga agcagaagc taggagact tgacaagga 
acgcaatat ctactacaa agagtacac caagcatca 
aaagaatta tactcaagc ttgcgaaga tgctaagag 
tttggagtg ccagttgaa ttacactca aatccaact 
cgacaaact caagaaaac caacgtctt caacgcaac 
gttccacat ctggcacaa aggccactt cggcaccat 
caacaattt ctgccttgg aaggctgcc ttcggctcc 
tgtcgactg gtctgaaat caacgcagc ttggggtca 
aactgcact cttgctctc tgcacttgc acgcaaaat 
aaatctgac ctttgaaag atacagatt agtgccata 
cggcaatca ctcgtacat tgaggtaat tggcgaaca 
aaaagagtt ccctttgta cggttcggg cggttttaa 
gtttttgtg ggacactaa gtttgacaa cggaatggc 
cgcgttttt agattgctt acaacagtt tcaggaaaa 
ggtggagaa attggaaaa ggggaataa acagttttg 
ttttccgta tcgaacaaa taaggggaa aattgagga 
caatgacgc gagttactc aataaaaat tcagttaaa 
ttctgagga acaatggac caaagcaat gaaatttat 
gttaactaa tttgaagtg gggtctagc ttggatttc 
atcacagtt aaataacga tatagaaga gaatatgca 
aacggaaaa ttagtgtta ttgcatgtt tagtatttt 
ttatattta agtaatttt agtacctac aagtaaatt 
acgaaatct ataccatat ttttgttat gaaaatgac 
tgatgttgt tgtaattat gttcaataa atttaaagt 
agccaa

    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