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Gene information
General information
TC013165 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: 12855172..12874565
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
    TC013165
    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_05394

    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: 50.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 3 (3 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    beetle stock: bad (increased lethality), adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    Pupal morphology
    beetle stock: bad (increased lethality),
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    larva partially constricted - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    head partially not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    labium not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    head not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    thorax not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 50.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    eclosion delayed (still pupa) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC013165 RA
      MCEGGFSAA EGLSRMASL GGAALGVPQ GLQNPQATK 
      KQEDHIKRP MNAFMVWSR LQRRKIAQE NPKMHNSEI 
      SKRLGAEWK LLTEDEKRP FIDEAKRLR AMHMKEHPD 
      YKYRPRRKP KTLRKEGYP YSIPYPSVP MDALRAGMA 
      ASSMGQSMA SYYNPSAAY GSLSAASMA AAAAAAQQS 
      AAAMSAGLT APAQVVSSM DAMKYSMEA DKYRSPYIP 
      PSTLAMSMY SDPKYMDSS SKSYLERGY LDSTSALTK 
      AYFESSKMY MDSKYNPDP SRSYPLDIG KMYSDASAP 
      QQVPGNLGS PRSPDSPDV KPNPERQDG ASSSSSTTT 
      SSAGASPGA LPGYYPSSG MQQGATVPG LLPMAQYAS 
      QYPTQTPGG EFRRPLTVI F
    CDS sequence
    • >TC013165 RA
      atgtgcgag ggcggcttc agtgccgcg gagggactc 
      tcgaggatg gcttccttg ggtggagcc gccttgggc 
      gtccctcaa ggtctgcaa aacccgcaa gcaacgaag 
      aagcaagaa gaccacatc aagcggccg atgaacgcc 
      ttcatggtg tggtcgcgg ctgcagagg cgaaaaatt 
      gctcaagaa aaccccaaa atgcacaac tcggaaatc 
      tccaagcga ttaggtgcg gaatggaag ctcctgacg 
      gaggacgaa aagcggcct ttcatcgac gaagcaaaa 
      cggttacgt gcaatgcat atgaaggag catcccgac 
      tacaaatac cggccaaga cgtaagcca aaaaccttg 
      cgaaaagaa ggctatccc tactcgatt ccataccct 
      tcagtgcca atggacgca ttgagagct ggcatggcc 
      gccagcagc atgggtcag tccatggcc tcgtactac 
      aacccatcg gccgcctac ggctcccta agtgccgcc 
      tccatggcg gcggcagcg gcggcggcc cagcaatcg 
      gccgctgca atgtccgca ggactcaca gcacccgct 
      caggtggtg agttcgatg gacgccatg aagtactcc 
      atggaagcg gacaagtac cgctcgccc tacatcccc 
      ccatccacc ctggccatg tccatgtac tccgacccc 
      aagtacatg gactcgtcc tcgaagagc tacctggag 
      cgcggctac ctggactcg acctccgcc ctcaccaag 
      gcctacttc gagtcctcc aagatgtac atggacagc 
      aagtacaac ccggacccc tcacggtcg taccccctg 
      gacatcggc aagatgtac tcggacgcc tccgccccc 
      cagcaagtc ccggggaat ttggggtcg ccccggtcg 
      ccggactcc ccggacgtg aagcccaac ccggagcgg 
      caggacggg gcgtcgtcg tcgagttcg acgacgacg 
      tcgtcggcc ggggcctcg ccgggggcc ctcccgggg 
      tactacccc agcagcggc atgcagcaa ggagccaca 
      gtgcccgga ctcctgccc atggcccag tacgccagc 
      cagtacccc acacagacg cccggagga gagttccgg 
      agacccctc actgtaata ttttga
    mRNA sequence
    • >TC013165 RA
      tgccacaac tgcatagag ttcagtgct tttcggtga 
      gatacacgc atttacacc tatgtcgcc aatgttgcc 
      attatttct gacaatagg gacattgta attaattgt 
      gcgattgtg ccgtgtgtt ggactgata ggttttgtg 
      ctaatcatc gggacgaaa ctgcttcaa aattgatct 
      ggacctaca gaggcaggc ctccaacgg ccacttcat 
      cagatctgt gggtcagat gtgcgaggg cggcttcag 
      tgccgcgga gggactctc gaggatggc ttccttggg 
      tggagccgc cttgggcgt ccctcaagg tctgcaaaa 
      cccgcaagc aacgaagaa gcaagaaga ccacatcaa 
      gcggccgat gaacgcctt catggtgtg gtcgcggct 
      gcagaggcg aaaaattgc tcaagaaaa ccccaaaat 
      gcacaactc ggaaatctc caagcgatt aggtgcgga 
      atggaagct cctgacgga ggacgaaaa gcggccttt 
      catcgacga agcaaaacg gttacgtgc aatgcatat 
      gaaggagca tcccgacta caaataccg gccaagacg 
      taagccaaa aaccttgcg aaaagaagg ctatcccta 
      ctcgattcc atacccttc agtgccaat ggacgcatt 
      gagagctgg catggccgc cagcagcat gggtcagtc 
      catggcctc gtactacaa cccatcggc cgcctacgg 
      ctccctaag tgccgcctc catggcggc ggcagcggc 
      ggcggccca gcaatcggc cgctgcaat gtccgcagg 
      actcacagc acccgctca ggtggtgag ttcgatgga 
      cgccatgaa gtactccat ggaagcgga caagtaccg 
      ctcgcccta catcccccc atccaccct ggccatgtc 
      catgtactc cgaccccaa gtacatgga ctcgtcctc 
      gaagagcta cctggagcg cggctacct ggactcgac 
      ctccgccct caccaaggc ctacttcga gtcctccaa 
      gatgtacat ggacagcaa gtacaaccc ggacccctc 
      acggtcgta ccccctgga catcggcaa gatgtactc 
      ggacgcctc cgcccccca gcaagtccc ggggaattt 
      ggggtcgcc ccggtcgcc ggactcccc ggacgtgaa 
      gcccaaccc ggagcggca ggacggggc gtcgtcgtc 
      gagttcgac gacgacgtc gtcggccgg ggcctcgcc 
      gggggccct cccggggta ctaccccag cagcggcat 
      gcagcaagg agccacagt gcccggact cctgcccat 
      ggcccagta cgccagcca gtaccccac acagacgcc 
      cggaggaga gttccggag acccctcac tgtaatatt 
      ttgaccaga tcggttgtg aatgtgatt ggtgggttt 
      taggtgcgt tcgtgtgaa tatctctct aagtattct 
      agccgcaaa ggcaaccat agacgtaat tgtatgtaa 
      acgtataca tagttaaaa gaatttgtt tcgattgga 
      aattaattt attttgttt tgttcaaat tttaaatac 
      ctaacactt gtataaatg taaataatt ctctagcgt 
      gtacaaata gttgttttt aattatgta ttattgcaa 
      caaccacgt tgtccttat ttcgaagta ttgtacaaa 
      gcgcttggt tagttcaca caaattttt gttcctatt 
      tttcggtag ctataaact acgtatcca cgcatatac 
      cttgttatt atgaactta tctacatat agaattaat 
      gtaatggta tgttattga aaaatccaa aaaatctcg 
      aacaataaa ctagtttgt gattg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY