Status
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Gene information
General information
TC015782 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_007421.3: 8060046..8064680
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
    		TC015782
    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_05893

    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 (died as pupa) - 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): more than 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     larva everted (inside-out) - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    larva partially everted (inside-out) - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC015782 RA
      MNLVTTFTF LLLLSLNQI LADEKVRYD NFQVYRLTP 
RSQKAVQAL RELEENGYD FWTSVRGVN QPVDVMVPP 
HYKHRFNDF IRLNEFDAQ IYIPDVQKL IDNERPQTR 
KSVGLEWTD YHTLDEIND WLKDLASTN DNIELVTAG 
KTYEGRDIL GVKVSFKAG NENRTVFIE SNIHAREWI 
SSAVTTWML NEILTSKDS EVRQVAESH DWYFVPVFN 
PDGFVYTHT TDRLWRKTR VPYSSCYGA DPNRNWDYH 
FNDGGASPS PCSETYCGP KAFSEPTTK SLSEFITTI 
APKLQAYIA FHSYSQLLL LPYGYTSKH LENYQELYD 
VGVKAATSL AKRYGTKYE VGNIVDVLY VASGGSMDW 
VKGTFGTRI TYTYELRDT GRYGFVLPP DQIIPTAEE 
TFDSLVTIL QEFDKS
    CDS sequence
    • >TC015782 RA
      atgaatctt gttacgact tttactttc cttcttctc 
ctctctctt aaccaaatc cttgccgac gagaaagtt 
cgttacgac aacttccaa gtctaccga ttgactcct 
cgatcgcaa aaagccgtc caagcttta cgagaactt 
gaagaaaat ggttatgac ttctggaca agtgttaga 
ggagtcaac caaccggtt gatgtcatg gttcctcct 
cattacaag caccgattc aatgatttc atccgtttg 
aatgaattc gatgcccaa atttatatc ccagatgtt 
caaaaactg attgataac gaaagacct caaacaaga 
aagtctgta ggtctcgaa tggactgat tatcacact 
ttggatgag atcaacgat tggttgaaa gaccttgct 
tcaaccaat gacaacatc gaattggtc acagctggg 
aagacgtac gaaggacga gatattttg ggtgtgaag 
gtctctttc aaagcaggg aatgagaat aggactgtt 
tttatcgaa tcaaatatt catgcacgc gaatggata 
agttcggct gtgacaacc tggatgttg aacgaaatc 
ctgaccagc aaagattcc gaagttcgc caagttgcc 
gagagtcat gattggtac tttgtcccc gttttcaat 
ccagacgga ttcgtttac actcacact acggaccgc 
ttgtggcgt aaaacacgc gtgccatat tcctcatgt 
tatggcgct gatcctaac aggaattgg gattatcat 
tttaatgac ggtggagca agtccttcc ccttgctct 
gaaacctac tgtggacct aaggccttc tcagaaccg 
accactaag agcctgtct gaatttatc acaacaata 
gctccgaaa ttgcaagct tacattgcc ttccattcg 
tattcgcaa cttttgctg ctgccttat ggatacacg 
tccaaacat ttggaaaat tatcaagaa ttgtacgat 
gttggagtg aaagctgcc acgagtttg gccaagcga 
tacggcacg aaatacgaa gttggaaac attgtcgat 
gttctttat gtggcaagt ggaggcagt atggactgg 
gtaaaaggt acttttgga acccgaatt acctacact 
tatgaattg agagataca ggacgttat ggatttgtg 
ttgccacct gatcagatt attccaaca gctgaagaa 
acctttgat tctcttgta acaatattg caagagttc 
gataaatcg taa
    mRNA sequence
    • >TC015782 RA
      ataaataaa acaccgcat tcaactctt caactagtc 
tcttaaaag tgccaaaaa atgaatctt gttacgact 
tttactttc cttcttctc ctctctctt aaccaaatc 
cttgccgac gagaaagtt cgttacgac aacttccaa 
gtctaccga ttgactcct cgatcgcaa aaagccgtc 
caagcttta cgagaactt gaagaaaat ggttatgac 
ttctggaca agtgttaga ggagtcaac caaccggtt 
gatgtcatg gttcctcct cattacaag caccgattc 
aatgatttc atccgtttg aatgaattc gatgcccaa 
atttatatc ccagatgtt caaaaactg attgataac 
gaaagacct caaacaaga aagtctgta ggtctcgaa 
tggactgat tatcacact ttggatgag atcaacgat 
tggttgaaa gaccttgct tcaaccaat gacaacatc 
gaattggtc acagctggg aagacgtac gaaggacga 
gatattttg ggtgtgaag gtctctttc aaagcaggg 
aatgagaat aggactgtt tttatcgaa tcaaatatt 
catgcacgc gaatggata agttcggct gtgacaacc 
tggatgttg aacgaaatc ctgaccagc aaagattcc 
gaagttcgc caagttgcc gagagtcat gattggtac 
tttgtcccc gttttcaat ccagacgga ttcgtttac 
actcacact acggaccgc ttgtggcgt aaaacacgc 
gtgccatat tcctcatgt tatggcgct gatcctaac 
aggaattgg gattatcat tttaatgac ggtggagca 
agtccttcc ccttgctct gaaacctac tgtggacct 
aaggccttc tcagaaccg accactaag agcctgtct 
gaatttatc acaacaata gctccgaaa ttgcaagct 
tacattgcc ttccattcg tattcgcaa cttttgctg 
ctgccttat ggatacacg tccaaacat ttggaaaat 
tatcaagaa ttgtacgat gttggagtg aaagctgcc 
acgagtttg gccaagcga tacggcacg aaatacgaa 
gttggaaac attgtcgat gttctttat gtggcaagt 
ggaggcagt atggactgg gtaaaaggt acttttgga 
acccgaatt acctacact tatgaattg agagataca 
ggacgttat ggatttgtg ttgccacct gatcagatt 
attccaaca gctgaagaa acctttgat tctcttgta 
acaatattg caagagttc gataaatcg taaacaaaa 
atgtaacac tagaaataa aataaaaat actgaaaat 
ga

    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