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Gene information
General information
TC004918 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_007417.3: 4603820..4605423
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
    TC004918
    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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    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00783

    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 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): more than 80%

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

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - 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
    egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    cuticle remnants without visible segmentation but ap-polarity - Penetrance (percentage of animals/eggs on slide): less than 30%

    posterior terminus remaining - Penetrance (percentage of animals/eggs on slide): less than 30%
    head capsule mostly not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    head not closed - Penetrance (percentage of animals/eggs on slide): less than 30%

    head not closed - Penetrance (percentage of animals/eggs on slide): less than 30%

    thorax segment sometimes not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax not closed - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax not closed - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen not closed - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    adult lethality - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004918 RA
      MAKWGEGDP RWIVEERPD ATNVNNWHW TEKNAGPWS 
      VERIKELFK GVPVKTDLA DIQFTEIDK CEGEASANN 
      RKGKLIFFY EWDLSIKWT GKLKNGSKS YSGKVKIPN 
      LSEENDVSE LDIKVSVKD SDEEGDKLK EIMLKSCKD 
      VVRHQLTKY ISSLKEEFS KGMILPKKD EVKPDAVKN 
      LSSGFNKKI SMTPVVSEN NKQIGLKLD VTTINITQQ 
      FQCRAQEFY DALTKIEMV TAFTRAHVK MDASKGGKF 
      ELFNGNIVG QFDELVPGK KIVQQWRYK QWPEGHYST 
      VTFNINEKS DHTEVNVVQ SGVPTGEAE VTKENWQRY 
      YWDSMKRAF GFGAFIV
    CDS sequence
    • >TC004918 RA
      atggccaaa tggggcgag ggtgaccca cgatggatt 
      gtggaagaa cgaccagac gcaacaaat gtcaacaac 
      tggcactgg acggaaaaa aatgccggt ccttggtca 
      gtggaacgc ataaaagag ttatttaaa ggtgtgcca 
      gtaaaaact gacttagca gacattcag ttcacagag 
      atagataaa tgtgaaggg gaggcttct gctaataat 
      aggaaaggc aagctcata tttttttac gagtgggat 
      ttgagcatt aagtggact ggaaagttg aaaaatggg 
      agcaaaagc tactcaggc aaggtgaaa atacccaac 
      ctttccgag gaaaatgat gtctcagag ctggatatc 
      aaggtttct gtgaaagat tcggacgag gagggcgac 
      aagctgaag gaaattatg ttgaaatcc tgcaaagat 
      gtcgtccga caccaactc accaaatac atttcgagt 
      ttaaaagaa gaattttcc aaaggcatg attttgccg 
      aaaaaagat gaggtcaaa ccagacgcg gtcaaaaat 
      ctttcgagt ggttttaac aaaaaaatc agcatgaca 
      ccagtcgtc agcgaaaat aacaaacaa atcggactt 
      aaactagac gtaacaacg ataaacata actcaacag 
      tttcaatgt cgggcgcaa gaattttac gatgctttg 
      acaaaaatc gaaatggtg acggcgttt accagggca 
      catgtaaaa atggatgct tctaaaggc ggtaaattc 
      gaattattc aacggaaat attgttggg cagtttgat 
      gagttggta ccagggaaa aaaatcgtg caacagtgg 
      aggtataaa cagtggcct gagggccac tattcaact 
      gtaactttc aatattaat gaaaagagt gatcacact 
      gaagtcaat gtggtacaa tcaggcgta ccaacaggt 
      gaagcagaa gttactaag gaaaactgg cagaggtac 
      tactgggac tccatgaag cgggcgttt ggttttgga 
      gcattcatt gtttaa
    mRNA sequence
    • >TC004918 RA
      caaagtgca ttactggag gcttcgtgt gtcttgtga 
      atcgagagc agttccatt cattaattt tttaattta 
      ccgaattgt actcactgg gaaaaggcg ctcatttta 
      ttatacctg cagtttaca ggcgagatc acctttttt 
      tcgtctttt tctacactt aacctaaaa acacaatgg 
      ccaaatggg gcgagggtg acccacgat ggattgtgg 
      aagaacgac cagacgcaa caaatgtca acaactggc 
      actggacgg aaaaaaatg ccggtcctt ggtcagtgg 
      aacgcataa aagagttat ttaaaggtg tgccagtaa 
      aaactgact tagcagaca ttcagttca cagagatag 
      ataaatgtg aaggggagg cttctgcta ataatagga 
      aaggcaagc tcatatttt tttacgagt gggatttga 
      gcattaagt ggactggaa agttgaaaa atgggagca 
      aaagctact caggcaagg tgaaaatac ccaaccttt 
      ccgaggaaa atgatgtct cagagctgg atatcaagg 
      tttctgtga aagattcgg acgaggagg gcgacaagc 
      tgaaggaaa ttatgttga aatcctgca aagatgtcg 
      tccgacacc aactcacca aatacattt cgagtttaa 
      aagaagaat tttccaaag gcatgattt tgccgaaaa 
      aagatgagg tcaaaccag acgcggtca aaaatcttt 
      cgagtggtt ttaacaaaa aaatcagca tgacaccag 
      tcgtcagcg aaaataaca aacaaatcg gacttaaac 
      tagacgtaa caacgataa acataactc aacagtttc 
      aatgtcggg cgcaagaat tttacgatg ctttgacaa 
      aaatcgaaa tggtgacgg cgtttacca gggcacatg 
      taaaaatgg atgcttcta aaggcggta aattcgaat 
      tattcaacg gaaatattg ttgggcagt ttgatgagt 
      tggtaccag ggaaaaaaa tcgtgcaac agtggaggt 
      ataaacagt ggcctgagg gccactatt caactgtaa 
      ctttcaata ttaatgaaa agagtgatc acactgaag 
      tcaatgtgg tacaatcag gcgtaccaa caggtgaag 
      cagaagtta ctaaggaaa actggcaga ggtactact 
      gggactcca tgaagcggg cgtttggtt ttggagcat 
      tcattgttt aatgttaat tgtacatta ttagaacca 
      attattttt atagttacg aaccagcca ctttttaca 
      gcatagtgt atacttaat ttatttgaa aagcttcaa 
      cattttgtt acaacatat ttgtaaaat tactgtgag 
      gacgaataa aatttgaac accact
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY