Status
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Gene information
General information
TC016126 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.

NW_015451646.1: 193496..212003
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
    		TC016126
    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
    {{ goGene }}
    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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    Publish name
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05961

    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
    • >TC016126 RA
      MPERLNIDG PLWDQSTFV GRFKHFLWV TDPRTCIVS 
EEELDKAKI LVEQYRKHK EPPGTTVEQ VIYAKKLYE 
SAFHPDSGE KQNVFGRMS FQVPGGMAI TGAMLQWYR 
TPFAVVFWQ WVNQSFNAL VNYTNRNAK SPTTTTQLL 
VAYVSATGS AMATALGCK YYWTKRASP FVQRYVPFA 
AVAAANCVN IPLMRQNEL LYGIDCSDE NGNIVAQSR 
FAAAKGITQ VIISRITMC APGMLILPV IMERLEKYR 
WMQRISVLH GPLQVLAVG CFLSFMVPT ACGLFPQRC 
SIKATTLEW LEPEEYEKL KKKCGNNIP PLLYFNKGL
    CDS sequence
    • >TC016126 RA
      atgccggaa aggttgaac attgatggc cccctgtgg 
gaccagagc accttcgtg ggacgcttc aagcatttc 
ctgtgggtg accgaccca aggacttgt atcgtctca 
gaggaggag ttggacaag gcgaagatt ctcgttgaa 
cagtacagg aagcacaag gagccccca gggaccact 
gtagagcag gtcatttat gcgaagaaa ctgtacgag 
agtgcgttc catccagac agcggcgag aaacagaat 
gtgtttgga aggatgtct tttcaggtc cctgggggc 
atggctatc acgggggcg atgcttcag tggtatcgt 
acaccattc gcggtagtc ttctggcaa tgggtgaat 
caatcgttc aacgcttta gtaaactac acgaatcgc 
aacgcaaaa tcgccaaca accaccaca caactgcta 
gtcgcttac gtttcggcc acaggttca gcaatggct 
acagccctt ggctgtaaa tattactgg accaaacgt 
gccagtcct ttcgttcaa agatatgtg ccgtttgcg 
gccgtcgca gctgccaat tgcgtcaac atccctctg 
atgcgacaa aacgaactc ttgtacgga atcgactgt 
tccgacgag aatggtaac atcgtggca cagtcgaga 
ttcgctgcc gccaaagga atcactcag gtcattatt 
tcgagaatc accatgtgt gcaccagga atgctcatc 
ttgccggtt attatggaa aggttggag aagtatagg 
tggatgcag agaataagc gtcttgcat ggacccttg 
caagttttg gcagttgga tgtttccta tcatttatg 
gtaccaact gcctgtggt ctatttccc caaagatgc 
tccatcaaa gctacaaca ttggaatgg ttagaacct 
gaagaatac gaaaaactt aaaaagaaa tgtggaaac 
aacattcct ccattactc tacttcaac aaaggtctc 
taa
    mRNA sequence
    • >TC016126 RA
      aggtaaaat aatgtttaa aaataacca tacgccagt 
cttaagcag tcttaagcc atttaaaac tcattaaaa 
taatgctat cacgaacga aattttttc taacctcaa 
agttgaacc tgagctgtg aactttgag tgcacaaaa 
ataatccaa atatcaata attatataa ttacggcct 
gttttcgcg tccgaatca tattcgatc agccttcgt 
ggcattaaa tttggcaac cttctgttc cacatttgg 
cggccttgc gggtcgatc gtcgtgtca aaaactttc 
atatcagcc ctaacgaag caaatttca acgaaataa 
accctaaaa ctgcgaaac taaggttat gccggaaag 
gttgaacat tgatggccc cctgtggga ccagagcac 
cttcgtggg acgcttcaa gcatttcct gtgggtgac 
cgacccaag gacttgtat cgtctcaga ggaggagtt 
ggacaaggc gaagattct cgttgaaca gtacaggaa 
gcacaagga gcccccagg gaccactgt agagcaggt 
catttatgc gaagaaact gtacgagag tgcgttcca 
tccagacag cggcgagaa acagaatgt gtttggaag 
gatgtcttt tcaggtccc tgggggcat ggctatcac 
gggggcgat gcttcagtg gtatcgtac accattcgc 
ggtagtctt ctggcaatg ggtgaatca atcgttcaa 
cgctttagt aaactacac gaatcgcaa cgcaaaatc 
gccaacaac caccacaca actgctagt cgcttacgt 
ttcggccac aggttcagc aatggctac agcccttgg 
ctgtaaata ttactggac caaacgtgc cagtccttt 
cgttcaaag atatgtgcc gtttgcggc cgtcgcagc 
tgccaattg cgtcaacat ccctctgat gcgacaaaa 
cgaactctt gtacggaat cgactgttc cgacgagaa 
tggtaacat cgtggcaca gtcgagatt cgctgccgc 
caaaggaat cactcaggt cattatttc gagaatcac 
catgtgtgc accaggaat gctcatctt gccggttat 
tatggaaag gttggagaa gtataggtg gatgcagag 
aataagcgt cttgcatgg acccttgca agttttggc 
agttggatg tttcctatc atttatggt accaactgc 
ctgtggtct atttcccca aagatgctc catcaaagc 
tacaacatt ggaatggtt agaacctga agaatacga 
aaaacttaa aaagaaatg tggaaacaa cattcctcc 
attactcta cttcaacaa aggtctcta aataagatg 
ggagaaaaa ataagacaa taattagta caagaatag 
taaattctt aggtgttaa cacaggtat agctttcaa 
gaaaagtat acgtacttt agagtcagg ccaaaatct 
ctattaatt ttaattatg tgatgagtt atgcacaca 
gcaatatgg ttttattgt tttttaggt aataattta 
agcaataat ttattggtt tttattgtt gaaattgtg 
ttgtttaac aaaaaaaga aaaaaacgt tttaaaa

    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