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Gene information
General information
TC014418 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_007420.3: 10241287..10242378
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
    		TC014418
    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_10072

    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: 30.0% (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

    adult lethality - Number of animals showing the phenotype: 1 (11 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): less than 30%

    larval musculature fluorescence decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

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

    legs tibiotarsus potentially fused - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    legs femur potentially fused - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen segmentation/division irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen segment shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    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
    • >TC014418 RA
      MSKIGKVIL KNYGGHFGA RFVTTSAHN FKQAQKKPA 
EKSAPPAPK SPRLKDFSI YRFTKESKK KPHMQKYTI 
DLNDCGPMI LDALLKIKR EQDSTITFR RSCREGVCG 
SCAMNINGR NALACTKRI EPKGDCKIY PLPHMYVVK 
DLVVDMTRF LDQHKRIKP YLIRNHDVA IGQKQYLQS 
LKDRDKLDG YIECILCAC CSTSCPEYW WHGHGDNDF 
LGPAALLAV DRWIRDSRD EAAECRLAT LRDYFSVYR 
CHSIFNCTS CCPKHLNPA KAIAHLRMR LAGKKQKEK 
PEMTGMV
    CDS sequence
    • >TC014418 RA
      atgtcaaaa atcggcaaa gtaattttg aaaaattat 
ggggggcat tttggcgcc cgatttgtt acaacttcc 
gcacataac ttcaaacaa gctcaaaaa aagccggca 
gaaaagagt gctccccct gcccccaaa agtcctcgc 
ttgaaggat ttctcaatt tatcgcttc acgaaagaa 
agtaagaag aagccgcac atgcagaaa tacacgatt 
gatcttaac gattgtggc ccaatgatc cttgacgcc 
ttgctgaaa ataaaacga gagcaagac tcgactata 
actttccgc cgatcctgt cgtgagggt gtgtgcggc 
tcgtgtgcc atgaacatc aacggcagg aatgctctt 
gcctgcact aaacgaatc gaaccgaaa ggtgactgc 
aaaatctac cccctgccc cacatgtac gtcgtcaaa 
gacctagtt gtggacatg acgcgcttt ctagaccaa 
cacaagcga atcaagccg tatttgata cgcaatcac 
gacgtggcc attgggcaa aaacagtac ttgcagagt 
ctgaaagac cgcgataag ttggatggt tatattgaa 
tgcattttg tgcgcttgt tgttcgact tcgtgccct 
gaatattgg tggcacggc cacggcgac aacgatttt 
ctagggcct gcggccctt ttggccgtt gaccgatgg 
atcagagat tcacgagac gaagctgca gaatgccga 
cttgccaca ctacgtgac tatttcagt gtttacagg 
tgccactcg atcttcaat tgcacgagt tgctgcccc 
aaacacttg aatcctgcc aaggcgata gcgcatctg 
agaatgcga cttgcaggg aaaaaacaa aaggagaaa 
ccggagatg accggaatg gtgtaa
    mRNA sequence
    • >TC014418 RA
      tctctaaac gaactccaa atgtcaaaa atcggcaaa 
gtaattttg aaaaattat ggggggcat tttggcgcc 
cgatttgtt acaacttcc gcacataac ttcaaacaa 
gctcaaaaa aagccggca gaaaagagt gctccccct 
gcccccaaa agtcctcgc ttgaaggat ttctcaatt 
tatcgcttc acgaaagaa agtaagaag aagccgcac 
atgcagaaa tacacgatt gatcttaac gattgtggc 
ccaatgatc cttgacgcc ttgctgaaa ataaaacga 
gagcaagac tcgactata actttccgc cgatcctgt 
cgtgagggt gtgtgcggc tcgtgtgcc atgaacatc 
aacggcagg aatgctctt gcctgcact aaacgaatc 
gaaccgaaa ggtgactgc aaaatctac cccctgccc 
cacatgtac gtcgtcaaa gacctagtt gtggacatg 
acgcgcttt ctagaccaa cacaagcga atcaagccg 
tatttgata cgcaatcac gacgtggcc attgggcaa 
aaacagtac ttgcagagt ctgaaagac cgcgataag 
ttggatggt tatattgaa tgcattttg tgcgcttgt 
tgttcgact tcgtgccct gaatattgg tggcacggc 
cacggcgac aacgatttt ctagggcct gcggccctt 
ttggccgtt gaccgatgg atcagagat tcacgagac 
gaagctgca gaatgccga cttgccaca ctacgtgac 
tatttcagt gtttacagg tgccactcg atcttcaat 
tgcacgagt tgctgcccc aaacacttg aatcctgcc 
aaggcgata gcgcatctg agaatgcga cttgcaggg 
aaaaaacaa aaggagaaa ccggagatg accggaatg 
gtgtaaaac ttgtgttaa aattcattt atttgtatt 
gtgttgtgg cagtaaaat atttttatc aaaaactac 
gtcataata attacatgc aagacaa

    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