Status
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Gene information
General information
TC032543
Former TC numbers

If one gene is splitted or genes are merged, the original TC numbers are listed. One listed former TC number indicates the previous gene has be splitted, serveral former TC number represents a merged gene.

TC003781,TC003782 		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: 17541918..17568102
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
    		TC032543
    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_07029

    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)

    adult lethality - Number of animals showing the phenotype: 1 (9 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: % (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: % (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC032543 RA
      MFVLSVLFT VLVSYGNCC DLEQFFSEK QVSVEESAS 
TSQIVFRGF TIASEATPN DLRGVFTAY FELINTYKG 
AEALEAWGA DNYRRINVT FLTRPSGEC SEGSQVPRE 
YIIFCNLVN DELRATSVA KWDESADQR VWAALGWSS 
WSDWSACSV SCSSGIQQR TRHCLISDC PGFNVEQRH 
CNLFGCDET VNPLALEES RFFHPSKDR WQTVPNRPT 
AWRLKPNSY IWVPSMQLF PDAKIRPFP REFALFVTL 
RVQNQSTMG TIFSLRSRR RQDTYLSLE IAGIDLKLI 
HAASNGTDV VRIPSQLGD GLWHQIAIS IRDDSVVDS 
YVDCEWSRT DILRSHTLD IPDDSDLII GYLFTGDLE 
QLSIVPDPR LVSLQCSSL RTPIIDPSV KDVEESKPK 
KSIKHPKQT RTKSDN
    CDS sequence
    • >TC032543 RA
      atgttcgtc ctgagtgtc ctcttcacc gttctagtg 
tcttacggg aactgttgt gatctcgaa caattcttt 
agtgaaaag caagtgagc gtcgaagag agcgcctcg 
acgtctcag attgtgttt cgaggtttc acgatcgcc 
tcggaggcg acgccgaat gatctacga ggcgtcttc 
acggcctac tttgaacta ataaacacg tataagggc 
gccgaggcg ctcgaagct tggggcgcc gataattac 
agacgaata aacgtcaca ttcctgaca cgaccgtct 
ggagagtgc tcggaaggc agccaagtc cctcgggag 
tacatcata ttttgtaat ctggtgaat gacgaacta 
cgagcgact tcagtagct aaatgggat gaaagtgcg 
gatcaaagg gtctgggca gcattaggc tggagttcg 
tggagcgat tggtccgca tgcagcgtt agctgttcc 
tccgggatc cagcaacgc acccgccac tgtcttatc 
tcggactgt cccggattc aacgtggaa cagcgacac 
tgcaatctg ttcggttgt gacgagacc gtcaaccct 
ctggctctg gaagagagc cgctttttc cacccttca 
aaagatcgt tggcagacg gtgccaaac cgtccgaca 
gcatggcgt ctaaaaccc aattcgtac atttgggtg 
ccctcaatg caactattc cccgacgcc aagattcga 
ccattcccc cgcgaattc gccctcttt gtcaccctc 
cgagtgcaa aaccaaagc acgatgggc accatcttc 
agcctgcgt tcgcgccgc cgccaggac acctacctg 
tcccttgaa atcgcagga attgacctg aaattaatc 
cacgccgcc tccaacggc accgacgtg gtgcggata 
ccgtcccag ctgggggac ggcctgtgg caccagatc 
gccataagc atccgggat gacagcgtg gttgatagc 
tacgtggat tgcgaatgg tcccggact gacattttg 
aggtctcac accctcgac atccccgac gattccgac 
ctgatcatc ggttatctg tttacgggc gatttggag 
cagctttcg atagttcct gatccgaga cttgtcagt 
ttgcaatgt tcctctctc cgaacaccg attatcgat 
ccgagtgtc aaagacgtc gaagaatca aagccgaaa 
aaaagcata aaacacccc aagcaaaca agaacaaaa 
agtgataac taa
    mRNA sequence
    • >TC032543 RA
      gtgcgcgac taagctttg ctcggtacg gccgaatca 
aagctcgac tttgcgaac acgtgaagt gcttaatga 
agcaagcgc agaaagttt atttgtaag tttttgaat 
cgaattggg tgcacgagg acctcatat cactcgcta 
tgcagatgg cgtcgtaaa aattcttca tttctttcg 
aaaaacagt gcagaaatg ttcgtcctg agtgtcctc 
ttcaccgtt ctagtgtct tacgggaac tgttgtgat 
ctcgaacaa ttctttagt gaaaagcaa gtgagcgtc 
gaagagagc gcctcgacg tctcagatt gtgtttcga 
ggtttcacg atcgcctcg gaggcgacg ccgaatgat 
ctacgaggc gtcttcacg gcctacttt gaactaata 
aacacgtat aagggcgcc gaggcgctc gaagcttgg 
ggcgccgat aattacaga cgaataaac gtcacattc 
ctgacacga ccgtctgga gagtgctcg gaaggcagc 
caagtccct cgggagtac atcatattt tgtaatctg 
gtgaatgac gaactacga gcgacttca gtagctaaa 
tgggatgaa agtgcggat caaagggtc tgggcagca 
ttaggctgg agttcgtgg agcgattgg tccgcatgc 
agcgttagc tgttcctcc gggatccag caacgcacc 
cgccactgt cttatctcg gactgtccc ggattcaac 
gtggaacag cgacactgc aatctgttc ggttgtgac 
gagaccgtc aaccctctg gctctggaa gagagccgc 
tttttccac ccttcaaaa gatcgttgg cagacggtg 
ccaaaccgt ccgacagca tggcgtcta aaacccaat 
tcgtacatt tgggtgccc tcaatgcaa ctattcccc 
gacgccaag attcgacca ttcccccgc gaattcgcc 
ctctttgtc accctccga gtgcaaaac caaagcacg 
atgggcacc atcttcagc ctgcgttcg cgccgccgc 
caggacacc tacctgtcc cttgaaatc gcaggaatt 
gacctgaaa ttaatccac gccgcctcc aacggcacc 
gacgtggtg cggataccg tcccagctg ggggacggc 
ctgtggcac cagatcgcc ataagcatc cgggatgac 
agcgtggtt gatagctac gtggattgc gaatggtcc 
cggactgac attttgagg tctcacacc ctcgacatc 
cccgacgat tccgacctg atcatcggt tatctgttt 
acgggcgat ttggagcag ctttcgata gttcctgat 
ccgagactt gtcagtttg caatgttcc tctctccga 
acaccgatt atcgatccg agtgtcaaa gacgtcgaa 
gaatcaaag ccgaaaaaa agcataaaa caccccaag 
caaacaaga acaaaaagt gataactaa tcaaaaatt 
atttaatta gtacaatcg atacatatt tgtatttac 
gattaaatg tttaaatgt tttcattaa tttattaaa 
gaattgttg tacctgcat gacaatagg cacttgtta 
ctaaaacac gtttcgtgt aatttaagt tggtagaca 
tggacaata aaattgtgt gtgtcatcg gaggaagag 
tttatttct tgttatttg ctttgacgt tgtagtcga 
gatttaact gtttttaaa taaatattt gactgaaat

    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