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Gene information
General information
TC005435 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_007423.3: 13177090..13178729
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
    TC005435
    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_03948

    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 larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 40.0% (includes death as larva, prepupa, pupa, adult)

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


    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005435 RA
      MNFKDETEY ENSTYEYHL QRERINKIF DETIHKLRL 
      LAHLPNLVE NDTEALQKF LSKTEADFI KLVCQEHQP 
      FSREMIQNR SDLDLICNT LERINMNEP RKGAHSSKR 
      TRMFSGLEH FDTHVACAL DIIFKSEAL VQYMESLED 
      KNDSLMTTF IESMTKLKK IVEERLSVS ASEEIKREN 
      DLKTAYRSS MMLSDLIQE LEELLEKQR QELGRERDR 
      KEEILRELA EKIETLKEK SQKDINRLV YDTETVMMK 
      DYNKSVELQ VELSEDAKN TTEQYNSLL EEHLHQEKL 
      LRAKRLKVE TQLASWVAK YDTDIGEKQ AEYDELDEI 
      FQNEKREFE ELQEKFEDQ AEEYHILMR EKEEEEQRI 
      YEEKAWIFL QNRSARRIQ RAWRAHRAR KLARKKGRK 
      SKKKGGSAS KKEKKSPKE KKKKKKKEE KTASRFLAK
    CDS sequence
    • >TC005435 RA
      atgaatttc aaagacgag accgaatat gagaactcc 
      acatacgaa taccacttg cagcgtgaa cgcattaac 
      aaaatcttc gacgaaaca atccacaag ttgcgtctt 
      ttggcccac ttgcccaat ctggttgaa aatgacact 
      gaagccttg cagaaattc ctctcaaaa accgaggcc 
      gactttatc aaacttgta tgccaggaa caccagcct 
      ttttcccgt gagatgatc cagaaccgg tccgatttg 
      gacctaatt tgcaacacc ttggagcga attaacatg 
      aacgaaccc cggaaggga gcacactcc agtaaaagg 
      actcggatg ttttcgggt ctggaacac tttgacaca 
      catgtggct tgcgccctt gatattatt ttcaaatcg 
      gaggctttg gtgcaatat atggagagt ctggaggac 
      aagaacgat tctctaatg accacattt atcgagtct 
      atgaccaag ttgaagaaa atcgttgag gagagatta 
      agtgtttcg gcgtctgag gaaatcaag agggagaac 
      gacctcaaa acggcctac aggtcaagc atgatgctg 
      tcggacctg atacaagaa ctggaagag ttgttggag 
      aaacagcga caagagcta gggcgtgag cgcgaccgc 
      aaggaagag attttgcga gaactggcc gaaaaaatc 
      gaaactttg aaagagaaa tcacaaaag gacatcaac 
      cgtcttgtc tacgacacc gaaactgtg atgatgaag 
      gactacaat aagagcgtg gaactgcag gttgaacta 
      tcagaagat gccaaaaac acaaccgaa cagtacaat 
      tccctactt gaggaacat cttcaccag gagaagctg 
      ctcagggcg aaaagactc aaagttgag acacaatta 
      gccagttgg gtggccaag tatgacaca gatattggg 
      gaaaaacag gcagaatat gacgaactt gacgaaatt 
      ttccaaaac gagaaacga gagtttgag gagttgcaa 
      gaaaagttt gaggatcag gctgaggag taccacatt 
      ctaatgcga gagaaggag gaggaggag cagaggatt 
      tacgaggag aaggcgtgg atatttttg caaaaccgc 
      tcagccagg aggatccaa agggcctgg agggcgcac 
      cgagccagg aaattggcg cggaaaaag ggccggaaa 
      tctaaaaag aagggcggt agtgctagt aaaaaagag 
      aaaaagagt cccaaagaa aagaagaag aagaaaaag 
      aaggaggaa aagacagcg agtcgattc ttggcgaaa 
      tga
    mRNA sequence
    • >TC005435 RA
      caaagtgac aagtccgaa atgaatttc aaagacgag 
      accgaatat gagaactcc acatacgaa taccacttg 
      cagcgtgaa cgcattaac aaaatcttc gacgaaaca 
      atccacaag ttgcgtctt ttggcccac ttgcccaat 
      ctggttgaa aatgacact gaagccttg cagaaattc 
      ctctcaaaa accgaggcc gactttatc aaacttgta 
      tgccaggaa caccagcct ttttcccgt gagatgatc 
      cagaaccgg tccgatttg gacctaatt tgcaacacc 
      ttggagcga attaacatg aacgaaccc cggaaggga 
      gcacactcc agtaaaagg actcggatg ttttcgggt 
      ctggaacac tttgacaca catgtggct tgcgccctt 
      gatattatt ttcaaatcg gaggctttg gtgcaatat 
      atggagagt ctggaggac aagaacgat tctctaatg 
      accacattt atcgagtct atgaccaag ttgaagaaa 
      atcgttgag gagagatta agtgtttcg gcgtctgag 
      gaaatcaag agggagaac gacctcaaa acggcctac 
      aggtcaagc atgatgctg tcggacctg atacaagaa 
      ctggaagag ttgttggag aaacagcga caagagcta 
      gggcgtgag cgcgaccgc aaggaagag attttgcga 
      gaactggcc gaaaaaatc gaaactttg aaagagaaa 
      tcacaaaag gacatcaac cgtcttgtc tacgacacc 
      gaaactgtg atgatgaag gactacaat aagagcgtg 
      gaactgcag gttgaacta tcagaagat gccaaaaac 
      acaaccgaa cagtacaat tccctactt gaggaacat 
      cttcaccag gagaagctg ctcagggcg aaaagactc 
      aaagttgag acacaatta gccagttgg gtggccaag 
      tatgacaca gatattggg gaaaaacag gcagaatat 
      gacgaactt gacgaaatt ttccaaaac gagaaacga 
      gagtttgag gagttgcaa gaaaagttt gaggatcag 
      gctgaggag taccacatt ctaatgcga gagaaggag 
      gaggaggag cagaggatt tacgaggag aaggcgtgg 
      atatttttg caaaaccgc tcagccagg aggatccaa 
      agggcctgg agggcgcac cgagccagg aaattggcg 
      cggaaaaag ggccggaaa tctaaaaag aagggcggt 
      agtgctagt aaaaaagag aaaaagagt cccaaagaa 
      aagaagaag aagaaaaag aaggaggaa aagacagcg 
      agtcgattc ttggcgaaa tgaagtcga ctgaaggtt 
      tcgacaaaa aggatttgg tggttgatt taataaacg 
      attgattac gaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY