Status
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Gene information
General information
TC011192 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: 19296066..19298413
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
    		TC011192
    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_04983

    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: 10.0% (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

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     legs distal decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    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: 70.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 80.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 7 (11 dpi)
    Days post injection

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011192 RA
      MASAASLIK YTKLFINNE FVDSVSKKT FPTLNPTNG 
AKIIDISEG DKEDIDKAV QAAKAAFSR GAPWRKMDA 
STRGKLIIK LADLIERDI NTLAKLETL DNGKPLSDS 
TLDIQCSID VLRYYGGYC DKIHGNTIP ADGDCLSLT 
RKEPVGVVG QIIPWNYPI MMQIWKWGP ALAAGCTMV 
LKPAEQTPI TALALAALV KEAGFPPGV VNVVPGYGP 
TAGAALALH KDVNKVAFT GSTIVGKKI MEYSAQSNL 
KRVSLELGG KSPLVVFND ADLDEAVEI AHNAIFGNH 
GQNCCAGSR TFVQSGIYD AFVQKAVQK AKLRKVGDP 
FDPNVQQGP QIDKPSLDK ILRLIDSGK KEGAKLEIG 
GSRIGTEGY FVEPTVFSN VTDAMSIAK EEIFGPVQS 
ILKFETLEE VIERANDTY YGLAAGVIT KNIDTALTF 
AQAVQAGSV WVNCYDYIT PQTPFGGYK MSGIGREMG 
AESLDAYVE TKTISIKLP TKV
    CDS sequence
    • >TC011192 RA
      atggcttcc gcagcgtct ttaattaaa tacacaaag 
ttgtttata aacaacgaa tttgtggac tctgtgagt 
aaaaaaacc ttcccaact ctgaacccc acaaatggg 
gccaaaatc atcgacatt tccgagggg gacaaggaa 
gacattgac aaggcggtc caagcggct aaagcagcc 
ttttccaga ggcgcccca tggcgcaaa atggatgcc 
tcaacccga ggcaaactc ataatcaag ctcgccgac 
ttgatcgaa cgcgatatt aacacgctc gcaaagctg 
gaaaccctt gataacggc aaaccctta tcagactca 
acgctcgat atccagtgc agcatcgac gtcttgcgc 
tactatggg ggctattgc gacaaaatc cacggtaac 
acaatcccc gcagacggc gattgtctc tccctcacc 
cgcaaggag ccggtcggc gtcgtgggc cagatcatc 
ccctggaac taccccatc atgatgcag atctggaaa 
tggggcccc gccctggcc gctggctgc accatggtg 
ctgaagccg gccgagcag acccccatc acggccctc 
gcgttggcg gccctggtc aaagaggcg gggtttccc 
ccgggggtg gtgaacgtg gtccccggg tacgggccc 
acggcgggg gcggcccta gccctccac aaagacgtc 
aataaagtg gctttcacc ggatccaca attgtcggc 
aaaaaaatc atggagtat agcgcgcag tcgaacttg 
aaacgtgtg agtctcgag ctggggggc aagagcccc 
cttgtggtc ttcaatgac gctgatttg gatgaggcg 
gtggaaatc gcccataat gcgattttt ggcaaccac 
ggccagaat tgttgtgcc ggttcccgt acttttgtt 
caatctgga atttacgat gcttttgta caaaaagcg 
gtccaaaag gccaagctg cgtaaagtt ggcgatcca 
tttgacccc aatgtgcaa caagggcct caaattgat 
aagccatcg cttgataaa atcttgcgt ttgattgat 
tcggggaag aaggaaggg gcgaaattg gaaatcggg 
ggttcccgg atcgggact gaggggtat ttcgtcgaa 
ccgactgtc ttttcgaat gttactgat gctatgagc 
attgccaaa gaagagatt tttggccct gtgcaaagc 
attttgaaa tttgagacc ctggaggag gttattgaa 
agggccaat gacacgtat tacggtttg gcggctggg 
gttatcacc aaaaatatt gatacggcc ctgacattc 
gcccaagcg gtccaagcc ggttctgtt tgggtgaac 
tgttacgac tacatcacg ccacaaacg ccgttcggg 
ggctacaaa atgtccgga atcgggcgt gaaatgggg 
gccgagtca ctagacgcg tacgtggaa accaaaaca 
atttccatc aaactgcca actaaggtc taa
    mRNA sequence
    • >TC011192 RA
      gagatcaga ggtcaaagc agtgattag atatctatc 
taattcctt aagaaaaca acaattaca taaaaaatt 
gccacgttg aaacatggc ttccgcagc gtctttaat 
taaatacac aaagttgtt tataaacaa cgaatttgt 
ggactctgt gagtaaaaa aaccttccc aactctgaa 
ccccacaaa tggggccaa aatcatcga catttccga 
gggggacaa ggaagacat tgacaaggc ggtccaagc 
ggctaaagc agccttttc cagaggcgc cccatggcg 
caaaatgga tgcctcaac ccgaggcaa actcataat 
caagctcgc cgacttgat cgaacgcga tattaacac 
gctcgcaaa gctggaaac ccttgataa cggcaaacc 
cttatcaga ctcaacgct cgatatcca gtgcagcat 
cgacgtctt gcgctacta tgggggcta ttgcgacaa 
aatccacgg taacacaat ccccgcaga cggcgattg 
tctctccct cacccgcaa ggagccggt cggcgtcgt 
gggccagat catcccctg gaactaccc catcatgat 
gcagatctg gaaatgggg ccccgccct ggccgctgg 
ctgcaccat ggtgctgaa gccggccga gcagacccc 
catcacggc cctcgcgtt ggcggccct ggtcaaaga 
ggcggggtt tcccccggg ggtggtgaa cgtggtccc 
cgggtacgg gcccacggc gggggcggc cctagccct 
ccacaaaga cgtcaataa agtggcttt caccggatc 
cacaattgt cggcaaaaa aatcatgga gtatagcgc 
gcagtcgaa cttgaaacg tgtgagtct cgagctggg 
gggcaagag cccccttgt ggtcttcaa tgacgctga 
tttggatga ggcggtgga aatcgccca taatgcgat 
ttttggcaa ccacggcca gaattgttg tgccggttc 
ccgtacttt tgttcaatc tggaattta cgatgcttt 
tgtacaaaa agcggtcca aaaggccaa gctgcgtaa 
agttggcga tccatttga ccccaatgt gcaacaagg 
gcctcaaat tgataagcc atcgcttga taaaatctt 
gcgtttgat tgattcggg gaagaagga aggggcgaa 
attggaaat cgggggttc ccggatcgg gactgaggg 
gtatttcgt cgaaccgac tgtcttttc gaatgttac 
tgatgctat gagcattgc caaagaaga gatttttgg 
ccctgtgca aagcatttt gaaatttga gaccctgga 
ggaggttat tgaaagggc caatgacac gtattacgg 
tttggcggc tggggttat caccaaaaa tattgatac 
ggccctgac attcgccca agcggtcca agccggttc 
tgtttgggt gaactgtta cgactacat cacgccaca 
aacgccgtt cgggggcta caaaatgtc cggaatcgg 
gcgtgaaat gggggccga gtcactaga cgcgtacgt 
ggaaaccaa aacaatttc catcaaact gccaactaa 
ggtctaaaa cttttcatt ttcgtaaaa agca

    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